Commit 35c417bb authored by Venkat Malladi's avatar Venkat Malladi
Browse files

Analysis of basal cell state

parent 721d6ff4
RIP-seq full analysis
=====================================
## Setup and Imports
```{r init}
source("http://bioconductor.org/biocLite.R")
biocLite("GenomicFeatures")
biocLite("groHMM")
biocLite("org.Hs.eg.db")
biocLite("edgeR")
biocLite("TxDb.Hsapiens.UCSC.hg19.knownGene")
biocLite("goseq")
install.packages("ggplot2")
install.packages("VennDiagram")
install.packages("reshape")
library(groHMM)
library(TxDb.Hsapiens.UCSC.hg19.knownGene)
library(edgeR)
library(org.Hs.eg.db)
library(GenomicAlignments)
library(GenomicFeatures)
library(ggplot2)
library(VennDiagram)
library(reshape)
```
## Functions
```{r functions}
reverseStrandGA <- function(ga) {
temp <- ga
strand(temp[as.character(strand(ga)) == "+",]) <- "-"
strand(temp[as.character(strand(ga)) == "-",]) <- "+"
return(temp)
}
readBam <- function(bam_file, reverse=TRUE) {
#print(sam)
bam <- file.path(bam_file)
reads <- as(readGAlignments(bam), "GRanges")
gr <- granges(reads)
gr <- sortSeqlevels(gr)
#print(paste("Lib:", NROW(gr)), quote=FALSE)
if (reverse)
reads <- reverseStrandGA(reads)
return(reads)
}
countReads <- function(anno, sam, snrna_anno, removeSNORNA=TRUE) {
bam <- readBam(sam, reverse=TRUE)
lib <- NROW(bam)
if (removeSNORNA) {
o <- findOverlaps(bam, snrna_anno)
bam <- bam[-unique(queryHits(o)),]
}
counts <- countOverlaps(anno, bam)
return(list(lib=lib, counts=counts))
}
CountRefseq <- function(anno, sam, snrna_anno, removeSNORNA=TRUE) {
cnt1 <- countReads(anno=anno, sam=sam, snrna_anno=snrna_anno, removeSNORNA=removeSNORNA)
cnt2 <- countReads(anno=reduce(anno), sam=sam, snrna_anno=snrna_anno, removeSNORNA=removeSNORNA)
return(cnt1)
}
CountSNRNA <- function(anno, sam) {
cnt <- countReads(anno=anno, sam=sam, removeSNORNA=FALSE)
return(cnt)
}
```
## Transcripts
```{r transcripts}
## Load Annotation File
pc_file <- file.path("./", "ucsc_refseq_genes.gtf")
txdb <- makeTxDbFromGFF(pc_file, format="gtf")
pc_tx <- transcripts(txdb, columns=c("GENEID", "TXID", "TXNAME"))
pc_mapping <- read.csv("./refseq_mapping.txt", header=T, sep='\t')
pc_inx <- match(unlist(mcols(pc_tx)$TXNAME), pc_mapping$name)
mcols(pc_tx)$gene_name <- as.character(pc_mapping[pc_inx,"name2"])
seqlevels(pc_tx,force=TRUE) <- c("chr1","chr2","chr3","chr4","chr5","chr6","chr7","chr8","chr9", "chr10", "chr11", "chr12","chr13", "chr14", "chr15","chr16", "chr17", "chr18","chr19", "chr20", "chr21","chr22", "chrX","chrY" )
names(mcols(pc_tx)) <- c("gene_id", "tx_id", "tx_name","gene_name")
ref_tx <- pc_tx[grep("NM_*",mcols(pc_tx)$gene_id)]
NROW(unique(unlist(mcols(ref_tx)$gene_id)))
NROW(unique(unlist(mcols(ref_tx)$gene_name)))
lnc_file <- file.path("./", "lncipedia_4_0_hg19.gtf")
txdb <- makeTxDbFromGFF(lnc_file, format="gtf")
lnc_tx <- transcripts(txdb, columns=c("GENEID", "TXID", "TXNAME"))
names(mcols(lnc_tx)) <- c("gene_id", "tx_id", "tx_name")
seqlevels(lnc_tx,force=TRUE) <- c("chr1","chr2","chr3","chr4","chr5","chr6","chr7","chr8","chr9", "chr10", "chr11", "chr12","chr13", "chr14", "chr15","chr16", "chr17", "chr18","chr19", "chr20", "chr21","chr22", "chrX","chrY" )
NROW(unique(unlist(mcols(lnc_tx)$tx_name)))
NROW(unique(unlist(mcols(lnc_tx)$gene_id)))
sn_file <- file.path("./", "gencode.v19.annotation_snRNA.gtf")
txdb <- makeTxDbFromGFF(sn_file, format="gtf")
sn_tx <- transcripts(txdb, columns=c("GENEID", "TXID", "TXNAME"))
names(mcols(sn_tx)) <- c("gene_id", "tx_id", "tx_name")
seqlevels(sn_tx,force=TRUE) <- c("chr1","chr2","chr3","chr4","chr5","chr6","chr7","chr8","chr9", "chr10", "chr11", "chr12","chr13", "chr14", "chr15","chr16", "chr17", "chr18","chr19", "chr20", "chr21","chr22", "chrX","chrY" )
NROW(unique(unlist(mcols(sn_tx)$tx_name)))
NROW(unique(unlist(mcols(sn_tx)$gene_id)))
sno_file <- file.path("./", "gencode.v19.annotation_snoRNA.gtf")
txdb <- makeTxDbFromGFF(sno_file, format="gtf")
sno_tx <- transcripts(txdb, columns=c("GENEID", "TXID", "TXNAME"))
names(mcols(sno_tx)) <- c("gene_id", "tx_id", "tx_name")
seqlevels(sno_tx,force=TRUE) <- c("chr1","chr2","chr3","chr4","chr5","chr6","chr7","chr8","chr9", "chr10", "chr11", "chr12","chr13", "chr14", "chr15","chr16", "chr17", "chr18","chr19", "chr20", "chr21","chr22", "chrX","chrY" )
NROW(unique(unlist(mcols(sno_tx)$tx_name)))
NROW(unique(unlist(mcols(sno_tx)$gene_id)))
all_sn_file <- file.path("./", "gencode.v19.annotation_all_snRNA.gtf")
txdb <- makeTxDbFromGFF(all_sn_file, format="gtf")
all_sn_tx <- transcripts(txdb, columns=c("GENEID", "TXID", "TXNAME"))
names(mcols(all_sn_tx)) <- c("gene_id", "tx_id", "tx_name")
seqlevels(all_sn_tx,force=TRUE) <- c("chr1","chr2","chr3","chr4","chr5","chr6","chr7","chr8","chr9", "chr10", "chr11", "chr12","chr13", "chr14", "chr15","chr16", "chr17", "chr18","chr19", "chr20", "chr21","chr22", "chrX","chrY" )
```
```{r alignments}
MLK_RNA1 <- "/Volumes/project/GCRB/Lee_Lab/s163035/DK_RIP-seq/PARP1_RNAseq_in_AC16_MCF7_withTNFa_E2/raw/Sample_MLK_RNA1/align-star-se.sh-1.0.0/MLK_RNA1_AGTCAA_L008_R1.rDNA.filtered.fastq.gz_filtered_chrMAligned.sortedByCoord.out.bam"
MLK_RNA2 <- "/Volumes/project/GCRB/Lee_Lab/s163035/DK_RIP-seq/PARP1_RNAseq_in_AC16_MCF7_withTNFa_E2/raw/Sample_MLK_RNA2/align-star-se.sh-1.0.0/MLK_RNA2_GTCCGC_L008_R1.rDNA.filtered.fastq.gz_filtered_chrMAligned.sortedByCoord.out.bam"
MLK_RIP_PI1 <- "/Volumes/project/GCRB/Lee_Lab/s163035/DK_RIP-seq/PARP1_RIPseq_in_AC16_MCF7_withTNFa_E2/raw/Sample_MLK_RIP1_PI/align-star-se.sh-2.0.0/MLK_RIP1_PI_ACAGTG_L006_R1.rDNA.filtered.fastq.gz_filtered_chrMAligned.sortedByCoord.out.bam"
MLK_RIP_PI2 <- "/Volumes/project/GCRB/Lee_Lab/s163035/DK_RIP-seq/PARP1_RIPseq_in_AC16_MCF7_withTNFa_E2/raw/Sample_MLK_RIP2_PI/align-star-se.sh-2.0.0/MLK_RIP2_PI_GTTTCG_L008_R1.rDNA.filtered.fastq.gz_filtered_chrMAligned.sortedByCoord.out.bam"
MLK_RIP_PARP1 <- "/Volumes/project/GCRB/Lee_Lab/s163035/DK_RIP-seq/PARP1_RIPseq_in_AC16_MCF7_withTNFa_E2/raw/Sample_MLK_RIP1_PARP1/align-star-se.sh-2.0.0/MLK_RIP1_PARP1_GCCAAT_L005_R1.rDNA.filtered.fastq.gz_filtered_chrMAligned.sortedByCoord.out.bam"
MLK_RIP_PARP2 <- "/Volumes/project/GCRB/Lee_Lab/s163035/DK_RIP-seq/PARP1_RIPseq_in_AC16_MCF7_withTNFa_E2/raw/Sample_MLK_RIP2_PARP1/align-star-se.sh-2.0.0/MLK_RIP2_PARP1_CGTACG_L005_R1.rDNA.filtered.fastq.gz_filtered_chrMAligned.sortedByCoord.out.bam"
MPK_RIP_PARP1 <- "/Volumes/project/GCRB/Lee_Lab/s163035/DK_RIP-seq/PARP1_RIPseq_in_AC16_MCF7_withTNFa_E2/raw/Sample_MPK_RIP1_PARP1/align-star-se.sh-2.0.0/MPK_RIP1_PARP1_TAGCTT_L008_R1.rDNA.filtered.fastq.gz_filtered_chrMAligned.sortedByCoord.out.bam"
MPK_RIP_PARP2 <- "/Volumes/project/GCRB/Lee_Lab/s163035/DK_RIP-seq/PARP1_RIPseq_in_AC16_MCF7_withTNFa_E2/raw/Sample_MPK_RIP2_PARP1/align-star-se.sh-2.0.0/MPK_RIP2_PARP1_ATGAGC_L008_R1.rDNA.filtered.fastq.gz_filtered_chrMAligned.sortedByCoord.out.bam"
```
```{r counts}
MLK_RNA1_counts_ref <- CountRefseq(ref_tx, MLK_RNA1, all_sn_tx, removeSNORNA=TRUE)
MLK_RNA2_counts_ref <- CountRefseq(ref_tx, MLK_RNA2, all_sn_tx, removeSNORNA=TRUE)
MLK_RNA1_counts_lnc <- CountRefseq(lnc_tx, MLK_RNA1, all_sn_tx, removeSNORNA=TRUE)
MLK_RNA2_counts_lnc <- CountRefseq(lnc_tx, MLK_RNA2, all_sn_tx, removeSNORNA=TRUE)
MLK_RNA1_counts_sn <- CountSNRNA(sn_tx, MLK_RNA1)
MLK_RNA2_counts_sn <- CountSNRNA(sn_tx, MLK_RNA2)
MLK_RNA1_counts_sno <- CountSNRNA(sno_tx, MLK_RNA1)
MLK_RNA2_counts_sno <- CountSNRNA(sno_tx, MLK_RNA2)
MLK_RIP_PI1_counts_ref <- CountRefseq(ref_tx, MLK_RIP_PI1, all_sn_tx, removeSNORNA=TRUE)
MLK_RIP_PI2_counts_ref <- CountRefseq(ref_tx, MLK_RIP_PI2, all_sn_tx, removeSNORNA=TRUE)
MLK_RIP_PI1_counts_lnc <- CountRefseq(lnc_tx, MLK_RIP_PI1, all_sn_tx, removeSNORNA=TRUE)
MLK_RIP_PI2_counts_lnc <- CountRefseq(lnc_tx, MLK_RIP_PI2, all_sn_tx, removeSNORNA=TRUE)
MLK_RIP_PI1_counts_sn <- CountSNRNA(sn_tx, MLK_RIP_PI1)
MLK_RIP_PI2_counts_sn <- CountSNRNA(sn_tx, MLK_RIP_PI2)
MLK_RIP_PI1_counts_sno <- CountSNRNA(sno_tx, MLK_RIP_PI1)
MLK_RIP_PI2_counts_sno <- CountSNRNA(sno_tx, MLK_RIP_PI2)
MLK_RIP_PARP1_counts_ref <- CountRefseq(ref_tx, MLK_RIP_PARP1, all_sn_tx, removeSNORNA=TRUE)
MLK_RIP_PARP2_counts_ref <- CountRefseq(ref_tx, MLK_RIP_PARP2, all_sn_tx, removeSNORNA=TRUE)
MLK_RIP_PARP1_counts_lnc <- CountRefseq(lnc_tx, MLK_RIP_PARP1, all_sn_tx, removeSNORNA=TRUE)
MLK_RIP_PARP2_counts_lnc <- CountRefseq(lnc_tx, MLK_RIP_PARP2, all_sn_tx, removeSNORNA=TRUE)
MLK_RIP_PARP1_counts_sn <- CountSNRNA(sn_tx, MLK_RIP_PARP1)
MLK_RIP_PARP2_counts_sn <- CountSNRNA(sn_tx, MLK_RIP_PARP2)
MLK_RIP_PARP1_counts_sno <- CountSNRNA(sno_tx, MLK_RIP_PARP1)
MLK_RIP_PARP2_counts_sno <- CountSNRNA(sno_tx, MLK_RIP_PARP2)
MPK_RIP_PARP1_counts_sn <- CountSNRNA(sn_tx, MPK_RIP_PARP1)
MPK_RIP_PARP2_counts_sn <- CountSNRNA(sn_tx, MPK_RIP_PARP2)
MPK_RIP_PARP1_counts_sno <- CountSNRNA(sno_tx, MPK_RIP_PARP1)
MPK_RIP_PARP2_counts_sno <- CountSNRNA(sno_tx, MLK_RIP_PARP2)
```
# RPKM Cutoff
``` {r rpkm}
MLK_RNA_counts_ref <- MLK_RNA1_counts_ref$counts + MLK_RNA2_counts_ref$counts
MLK_RNA_lib_ref <- MLK_RNA1_counts_ref$lib + MLK_RNA2_counts_ref$lib
MLK_RNA_ref_d <- DGEList(counts=as.matrix(MLK_RNA_counts_ref), lib.size=MLK_RNA_lib_ref)
MLK_RNA_ref_rpkm <- data.frame(rpkm(MLK_RNA_ref_d,width(ref_tx)))
mlk_pc_rpkm <- ref_tx[MLK_RNA_ref_rpkm>=1]
NROW(unique(unlist(mcols(mlk_pc_rpkm)$tx_name)))
NROW(unique(unlist(mcols(mlk_pc_rpkm)$gene_name)))
MLK_RIP_PARP_counts_ref <- MLK_RIP_PARP1_counts_ref$counts + MLK_RIP_PARP2_counts_ref$counts
MLK_RIP_PARP_lib_ref <- MLK_RIP_PARP1_counts_ref$lib + MLK_RIP_PARP2_counts_ref$lib
MLK_RIP_PI_counts_ref <- MLK_RIP_PI1_counts_ref$counts + MLK_RIP_PI2_counts_ref$counts
MLK_RIP_PI_lib_ref <- MLK_RIP_PI1_counts_ref$lib + MLK_RIP_PI1_counts_ref$lib
MLK_RIP_PI_d <- DGEList(counts=as.matrix(MLK_RIP_PI_counts_ref), lib.size=MLK_RIP_PI_lib_ref)
MLK_RIP_PI_rpkm <- data.frame(rpkm(MLK_RIP_PI_d,width(ref_tx)))
MLK_RIP_PARP_d <- DGEList(counts=as.matrix(MLK_RIP_PARP_counts_ref), lib.size=MLK_RIP_PARP_lib_ref)
MLK_RIP_PARP_rpkm <- data.frame(rpkm(MLK_RIP_PARP_d,width(ref_tx)))
MLK_RIP_FC <- data.frame((MLK_RIP_PARP_rpkm+1)/(MLK_RIP_PI_rpkm+1))
mlk_pc_rpkm_fc <- ref_tx[MLK_RNA_ref_rpkm>=1 & MLK_RIP_FC>=2 ]
NROW(unique(unlist(mcols(mlk_pc_rpkm_fc)$tx_name)))
NROW(unique(unlist(mcols(mlk_pc_rpkm_fc)$gene_name)))
pc_ratio <- NROW(unique(unlist(mcols(mlk_pc_rpkm_fc)$gene_name)))/NROW(unique(unlist(mcols(mlk_pc_rpkm)$gene_name)))
MLK_RNA_counts_lnc <- MLK_RNA1_counts_lnc$counts + MLK_RNA2_counts_lnc$counts
MLK_RNA_lib_lnc <- MLK_RNA1_counts_lnc$lib + MLK_RNA2_counts_lnc$lib
MLK_RNA_lnc_d <- DGEList(counts=as.matrix(MLK_RNA_counts_lnc), lib.size=MLK_RNA_lib_lnc)
MLK_RNA_lnc_rpkm <- data.frame(rpkm(MLK_RNA_lnc_d,width(lnc_tx)))
mlk_lnc_rpkm <- lnc_tx[MLK_RNA_lnc_rpkm>=1]
NROW(unique(unlist(mcols(mlk_lnc_rpkm)$tx_name)))
NROW(unique(unlist(mcols(mlk_lnc_rpkm)$gene_id)))
MLK_RIP_PARP_counts_lnc <- MLK_RIP_PARP1_counts_lnc$counts + MLK_RIP_PARP2_counts_lnc$counts
MLK_RIP_PARP_lib_lnc<- MLK_RIP_PARP1_counts_lnc$lib + MLK_RIP_PARP2_counts_lnc$lib
MLK_RIP_PI_counts_lnc <- MLK_RIP_PI1_counts_lnc$counts + MLK_RIP_PI2_counts_lnc$counts
MLK_RIP_PI_lib_lnc <- MLK_RIP_PI1_counts_lnc$lib + MLK_RIP_PI1_counts_lnc$lib
MLK_RIP_PI_d <- DGEList(counts=as.matrix(MLK_RIP_PI_counts_lnc), lib.size=MLK_RIP_PI_lib_lnc)
MLK_RIP_PI_rpkm <- data.frame(rpkm(MLK_RIP_PI_d,width(lnc_tx)))
MLK_RIP_PARP_d <- DGEList(counts=as.matrix(MLK_RIP_PARP_counts_lnc), lib.size=MLK_RIP_PARP_lib_lnc)
MLK_RIP_PARP_rpkm <- data.frame(rpkm(MLK_RIP_PARP_d,width(lnc_tx)))
MLK_RIP_FC <- data.frame((MLK_RIP_PARP_rpkm+1)/(MLK_RIP_PI_rpkm+1))
mlk_lnc_rpkm_fc <- lnc_tx[MLK_RNA_lnc_rpkm>=1 & MLK_RIP_FC>=2 ]
NROW(unique(unlist(mcols(mlk_lnc_rpkm_fc)$tx_name)))
NROW(unique(unlist(mcols(mlk_lnc_rpkm_fc)$gene_id)))
lnc_ratio <- NROW(unique(unlist(mcols(mlk_lnc_rpkm_fc)$gene_id)))/NROW(unique(unlist(mcols(mlk_lnc_rpkm)$gene_id)))
MLK_RNA_counts_sno <- MLK_RNA1_counts_sno$counts + MLK_RNA2_counts_sno$counts
MLK_RNA_lib_sno <- MLK_RNA1_counts_sno$lib + MLK_RNA1_counts_sno$lib
MLK_RNA_sno_d <- DGEList(counts=as.matrix(MLK_RNA_counts_sno), lib.size=MLK_RNA_lib_sno)
MLK_RNA_sno_rpkm <- data.frame(rpkm(MLK_RNA_sno_d,width(sno_tx)))
mlk_sno_rpkm <- sno_tx[MLK_RNA_sno_rpkm>=1]
NROW(unique(unlist(mcols(mlk_sno_rpkm)$tx_name)))
MLK_RIP_PARP_counts_sno <- MLK_RIP_PARP1_counts_sno$counts + MLK_RIP_PARP2_counts_sno$counts
MLK_RIP_PARP_lib_sno<- MLK_RIP_PARP1_counts_sno$lib + MLK_RIP_PARP2_counts_sno$lib
MLK_RIP_PI_counts_sno <- MLK_RIP_PI1_counts_sno$counts + MLK_RIP_PI2_counts_sno$counts
MLK_RIP_PI_lib_sno <- MLK_RIP_PI1_counts_sno$lib + MLK_RIP_PI1_counts_sno$lib
MPK_RIP_PARP_counts_sno <- MPK_RIP_PARP1_counts_sno$counts + MPK_RIP_PARP2_counts_sno$counts
MPK_RIP_PARP_lib_sno<- MPK_RIP_PARP1_counts_sno$lib + MPK_RIP_PARP2_counts_sno$lib
MLK_RIP_PI_d <- DGEList(counts=as.matrix(MLK_RIP_PI_counts_sno), lib.size=MLK_RIP_PI_lib_sno)
MLK_RIP_PI_rpkm <- data.frame(rpkm(MLK_RIP_PI_d,width(sno_tx)))
MLK_RIP_PARP_d <- DGEList(counts=as.matrix(MLK_RIP_PARP_counts_sno), lib.size=MLK_RIP_PARP_lib_sno)
MLK_RIP_PARP_rpkm <- data.frame(rpkm(MLK_RIP_PARP_d,width(sno_tx)))
MPK_RIP_PARP_d <- DGEList(counts=as.matrix(MPK_RIP_PARP_counts_sno), lib.size=MPK_RIP_PARP_lib_sno)
MPK_RIP_PARP_rpkm <- data.frame(rpkm(MPK_RIP_PARP_d,width(sno_tx)))
MLK_RIP_FC <- data.frame((MLK_RIP_PARP_rpkm+1)/(MLK_RIP_PI_rpkm+1))
mlk_sno_rpkm_fc <- sno_tx[MLK_RNA_sno_rpkm>=1 & MLK_RIP_FC>=2 ]
NROW(unique(unlist(mcols(mlk_sno_rpkm_fc)$tx_name)))
sno_ratio <- NROW(unique(unlist(mcols(mlk_sno_rpkm_fc)$tx_name)))/NROW(unique(unlist(mcols(mlk_sno_rpkm)$tx_name)))
MLK_RIP_sno <- data.frame(MLK_RIP_PI_rpkm,MLK_RIP_PARP_rpkm)
colnames(MLK_RIP_sno) <- c('PI', 'PARP1')
MLK_RIP_sno_rpkm <- MLK_RIP_sno[MLK_RNA_sno_rpkm>=1 & MLK_RIP_FC>=2,]
MLK_RNA_counts_sn <- MLK_RNA1_counts_sn$counts + MLK_RNA2_counts_sn$counts
MLK_RNA_lib_sn <- MLK_RNA1_counts_sn$lib + MLK_RNA1_counts_sn$lib
MLK_RNA_sn_d <- DGEList(counts=as.matrix(MLK_RNA_counts_sn), lib.size=MLK_RNA_lib_sn)
MLK_RNA_sn_rpkm <- data.frame(rpkm(MLK_RNA_sn_d,width(sn_tx)))
mlk_sn_rpkm <- sn_tx[MLK_RNA_sn_rpkm>=1]
NROW(unique(unlist(mcols(mlk_sn_rpkm)$tx_name)))
MLK_RIP_PARP_counts_sn <- MLK_RIP_PARP1_counts_sn$counts + MLK_RIP_PARP2_counts_sn$counts
MLK_RIP_PARP_lib_sn<- MLK_RIP_PARP1_counts_sn$lib + MLK_RIP_PARP2_counts_sn$lib
MLK_RIP_PI_counts_sn <- MLK_RIP_PI1_counts_sn$counts + MLK_RIP_PI2_counts_sn$counts
MLK_RIP_PI_lib_sn <- MLK_RIP_PI1_counts_sn$lib + MLK_RIP_PI1_counts_sn$lib
MLK_RIP_PI_d <- DGEList(counts=as.matrix(MLK_RIP_PI_counts_sn), lib.size=MLK_RIP_PI_lib_sn)
MLK_RIP_PI_rpkm <- data.frame(rpkm(MLK_RIP_PI_d,width(sn_tx)))
MLK_RIP_PARP_d <- DGEList(counts=as.matrix(MLK_RIP_PARP_counts_sn), lib.size=MLK_RIP_PARP_lib_sn)
MLK_RIP_PARP_rpkm <- data.frame(rpkm(MLK_RIP_PARP_d,width(sn_tx)))
MLK_RIP_FC <- data.frame((MLK_RIP_PARP_rpkm+1)/(MLK_RIP_PI_rpkm+1))
mlk_sn_rpkm_fc <- sn_tx[MLK_RNA_sn_rpkm>=1 & MLK_RIP_FC>=2 ]
NROW(unique(unlist(mcols(mlk_sn_rpkm_fc)$tx_name)))
sn_ratio <- NROW(unique(unlist(mcols(mlk_sn_rpkm_fc)$tx_name)))/NROW(unique(unlist(mcols(mlk_sn_rpkm)$tx_name)))
allsno <- c(mlk_sno_rpkm_fc,mlk_sn_rpkm_fc)
# bar plot figure (B)
# Grouped Bar Plot
jpeg('barchart-mcf-7-basal-species.jpg')
ratios <- c(pc_ratio,lnc_ratio,sno_ratio,sn_ratio)
barplot(ratios, main="SNORNA MCF-7 Basal", col=c("red","black", "dimgrey", "lightgrey"))
dev.off()
boundTesting <-matrix(c(952,5471,205,239),nrow = 2,dimnames = list(Guess = c("bound", "unbound"),Truth = c("mRNA", "snoRNA")))
fisher.test(boundTesting)
# Boxplot of Preimmune vs PARP-1 (C)
jpeg('boxplot-mcf-7-basal-species.jpg')
boxplot(MLK_RIP_sno_rpkm,col=(c("orange","blue")),outline=FALSE,ylim = c(0,400),yaxt="n", cex.axis=1,las=2,lwd=4,lty=1)
axis(2, at=seq(0,400,100))
dev.off()
wilcox.test(MLK_RIP_sno_rpkm[,1], MLK_RIP_sno_rpkm[,2],paired=T)
# Get Categories of snRNA
mlk_gr_snotx <- data.frame(seqnames=seqnames(mlk_sno_rpkm),
starts=start(mlk_sno_rpkm)-1,
ends=end(mlk_sno_rpkm),
strand=strand(mlk_sno_rpkm),
tx_name = elementMetadata(mlk_sno_rpkm)$tx_name,
gene_id = unlist(elementMetadata(mlk_sno_rpkm)$gene_id))
sno_annotations <- read.table('RNA_small_nucleolar.txt',header = TRUE, sep = "\t")
sno_inx <- match(matrix(unlist(strsplit(as.character(mlk_gr_snotx$gene_id),split='.',fixed=T)),ncol=2,byrow=T)[,1], sno_annotations$ensembl_gene_id)
mlk_gr_snotx$symbol <- as.character(sno_annotations[sno_inx,"symbol"])
mlk_gr_snotx$gene_family <- as.character(sno_annotations[sno_inx,"gene_family"])
mlk_gr_snotx$gene_family[mlk_gr_snotx$gene_family == "Small nucleolar RNAs, H/ACA box"] <- "H/ACA box"
mlk_gr_snotx$gene_family[mlk_gr_snotx$gene_family == "Small nucleolar RNAs, C/D box"] <- "C/D box"
mlk_gr_snotx$gene_family[mlk_gr_snotx$gene_family == "Small Cajal body-specific RNAs"] <- "scaRNA"
mlk_gr_snotx$gene_family[mlk_gr_snotx$gene_family == ""] <- "Other"
mlk_gr_snotx$gene_family[is.na(mlk_gr_snotx$gene_family)] <- "Other"
ha_rna <- dim(mlk_gr_snotx[mlk_gr_snotx$gene_family == "H/ACA box",])[1]
cd_rna <- dim(mlk_gr_snotx[mlk_gr_snotx$gene_family == "C/D box",])[1]
sc_rna <- dim(mlk_gr_snotx[mlk_gr_snotx$gene_family == "scaRNA",])[1]
dat = data.frame(count=c(ha_rna, cd_rna, sc_rna), category=c("H/ACA box", "C/D box", "scaRNA"))
dat$fraction = dat$count / sum(dat$count)
dat$ymax = cumsum(dat$fraction)
dat$ymin = c(0, head(dat$ymax, n=-1))
dat$category <- factor(dat$category, levels = c("H/ACA box", "C/D box", "scaRNA"))
# (E)
jpeg('piechart-mcf-7-basal-species.jpg')
ggplot(dat, aes(fill=category, ymax=ymax, ymin=ymin, xmax=4, xmin=2)) +
geom_rect(fill=c('darkorchid1', "darkorange1","darkgreen")) +
coord_polar(theta="y") +
xlim(c(0, 4)) +
theme_bw() +
theme(panel.grid=element_blank()) +
theme(axis.text=element_blank()) +
theme(axis.ticks=element_blank())
dev.off()
mlk_gr_snotx <- data.frame(seqnames=seqnames(mlk_sno_rpkm_fc),
starts=start(mlk_sno_rpkm_fc)-1,
ends=end(mlk_sno_rpkm_fc),
strand=strand(mlk_sno_rpkm_fc),
tx_name = elementMetadata(mlk_sno_rpkm_fc)$tx_name,
gene_id = unlist(elementMetadata(mlk_sno_rpkm_fc)$gene_id))
sno_inx <- match(matrix(unlist(strsplit(as.character(mlk_gr_snotx$gene_id),split='.',fixed=T)),ncol=2,byrow=T)[,1], sno_annotations$ensembl_gene_id)
mlk_gr_snotx$symbol <- as.character(sno_annotations[sno_inx,"symbol"])
mlk_gr_snotx$gene_family <- as.character(sno_annotations[sno_inx,"gene_family"])
mlk_gr_snotx$gene_family[mlk_gr_snotx$gene_family == "Small nucleolar RNAs, H/ACA box"] <- "H/ACA box"
mlk_gr_snotx$gene_family[mlk_gr_snotx$gene_family == "Small nucleolar RNAs, C/D box"] <- "C/D box"
mlk_gr_snotx$gene_family[mlk_gr_snotx$gene_family == "Small Cajal body-specific RNAs"] <- "scaRNA"
mlk_gr_snotx$gene_family[mlk_gr_snotx$gene_family == ""] <- "Other"
mlk_gr_snotx$gene_family[is.na(mlk_gr_snotx$gene_family)] <- "Other"
ha_rip <- dim(mlk_gr_snotx[mlk_gr_snotx$gene_family == "H/ACA box",])[1]
cd_rip <- dim(mlk_gr_snotx[mlk_gr_snotx$gene_family == "C/D box",])[1]
sc_rip<- dim(mlk_gr_snotx[mlk_gr_snotx$gene_family == "scaRNA",])[1]
# bar plot figure (F)
# Bar plot
jpeg('barchart-mcf-7-basal-species_snospecies.jpg')
ratios <- c(sn_ratio,ha_rip/ha_rna,cd_rip/cd_rna,sc_rip/sc_rna)
barplot(ratios, main="snoRNA species MCF-7 Basal", col=c('pink1','darkorchid1', "darkorange1","darkgreen"),ylim=c(0,1))
dev.off()
typeTesting <-matrix(c(63,19,38,76),nrow = 2,dimnames = list(Guess = c("bound", "unbound"),Truth = c("HA", "CD")))
fisher.test(typeTesting)
```
hgnc_id symbol name locus_group locus_type status location location_sortable alias_symbol alias_name prev_symbol prev_name gene_family gene_family_id date_approved_reserved date_symbol_changed date_name_changed date_modified entrez_id ensembl_gene_id vega_id ucsc_id ena refseq_accession ccds_id uniprot_ids pubmed_id mgd_id rgd_id lsdb cosmic omim_id mirbase homeodb snornabase bioparadigms_slc orphanet pseudogene.org horde_id merops imgt iuphar kznf_gene_catalog mamit-trnadb cd lncrnadb enzyme_id intermediate_filament_db
HGNC:10103 RNU105B RNA, U105B small nucleolar non-coding RNA RNA, small nucleolar Approved 20p12.3 20p12.3 E1-2 1999-12-14 2014-11-19 26767 ENSG00000201348 uc032pac.2 U12207 NR_004386
HGNC:10104 RNU105C RNA, U105C small nucleolar non-coding RNA RNA, small nucleolar Approved 8q11.23 08q11.23 "E1-5|E1-6|U105C" 1999-12-14 2014-11-18 26766 ENSG00000199212 uc033blq.2 U12208 NR_004385
HGNC:32555 SCARNA1 small Cajal body-specific RNA 1 non-coding RNA RNA, small nucleolar Approved 1p35.3 01p35.3 ACA35 Small Cajal body-specific RNAs 847 2006-03-31 2013-09-05 677774 ENSG00000252947 uc001boy.1 AJ609484 NR_002997 SR0000002
HGNC:32558 SCARNA2 small Cajal body-specific RNA 2 non-coding RNA RNA, small nucleolar Approved 1q13.1 01q13.1 "mgU2-25/61|HBII-382" Small Cajal body-specific RNAs 847 2006-03-31 2015-01-30 677766 ENSG00000278249 OTTHUMG00000184013 uc057ixi.1 BK005568 NR_003023 15556860 SR0000023
HGNC:32577 SCARNA3 small Cajal body-specific RNA 3 non-coding RNA RNA, small nucleolar Approved 1q25.1 01q25.1 HBI-100 Small Cajal body-specific RNAs 847 2006-03-31 2014-11-19 677679 ENSG00000252906 uc057nmy.1 NR_002998 11387227 RGD:7489043 SR0000036
HGNC:32560 SCARNA4 small Cajal body-specific RNA 4 non-coding RNA RNA, small nucleolar Approved 1q22 01q22 ACA26 Small Cajal body-specific RNAs 847 2006-03-31 2015-08-04 677771 ENSG00000280466 uc057lts.1 AJ609483 NR_003005 SR0000025
HGNC:32561 SCARNA5 small Cajal body-specific RNA 5 non-coding RNA RNA, small nucleolar Approved 2q37.1 02q37.1 U87 Small Cajal body-specific RNAs 847 2006-03-31 2013-09-05 677775 ENSG00000252010 uc002vue.2 AY077737 NR_003008 12032087 615640 SR0000283
HGNC:32562 SCARNA6 small Cajal body-specific RNA 6 non-coding RNA RNA, small nucleolar Approved 2q37.1 02q37.1 U88 Small Cajal body-specific RNAs 847 2006-03-31 2013-09-05 677772 ENSG00000251791 uc002vuf.2 AY077738 NR_003006 12032087 615641 SR0000284
HGNC:32563 SCARNA7 small Cajal body-specific RNA 7 non-coding RNA RNA, small nucleolar Approved 3q25.22 03q25.22 U90 Small Cajal body-specific RNAs 847 2006-03-31 2013-09-05 677767 ENSG00000238741 uc003fdo.3 AY077740 NR_003001 12032087 615644 SR0000310
HGNC:32564 SCARNA8 small Cajal body-specific RNA 8 non-coding RNA RNA, small nucleolar Approved 9p22.1 09p22.1 U92 Small Cajal body-specific RNAs 847 2006-03-31 2013-09-05 677776 ENSG00000251733 uc003znn.1 AY077742 NR_003009 12032087 615646 SR0000356
HGNC:32566 SCARNA9 small Cajal body-specific RNA 9 non-coding RNA RNA, small nucleolar Approved 11q21 11q21 "mgU2-19/30|Z32" Small Cajal body-specific RNAs 847 2006-03-31 2013-09-05 619383 ENSG00000254911 OTTHUMG00000167450 uc001pdv.4 BK005567 NR_002569 15556860 SR0000064
HGNC:32567 SCARNA10 small Cajal body-specific RNA 10 non-coding RNA RNA, small nucleolar Approved 12p13.31 12p13.31 U85 Small Cajal body-specific RNAs 847 2006-03-31 2013-09-05 692148 ENSG00000239002 OTTHUMG00000169160 uc009zeo.1 AF308283 NR_004387 11157760 615639 SR0000073
HGNC:32568 SCARNA11 small Cajal body-specific RNA 11 non-coding RNA RNA, small nucleolar Approved 12p13.31 12p13.31 ACA57 Small Cajal body-specific RNAs 847 2006-03-31 2013-09-05 677780 ENSG00000251898 uc001qpr.2 AJ609487 NR_003012 SR0000074
HGNC:32569 SCARNA12 small Cajal body-specific RNA 12 non-coding RNA RNA, small nucleolar Approved 12p13.31 12p13.31 U89 Small Cajal body-specific RNAs 847 2006-03-31 2013-09-05 677777 ENSG00000238795 uc001qsg.3 AY077739 NR_003010 615642 SR0000075
HGNC:32570 SCARNA13 small Cajal body-specific RNA 13 non-coding RNA RNA, small nucleolar Approved 14q32.12 14q32.12 U93 Small Cajal body-specific RNAs 847 2006-03-31 2013-09-05 677768 ENSG00000252481 uc001yel.4 AF492209 NR_003002 12409454 SR0000089
HGNC:32571 SCARNA14 small Cajal body-specific RNA 14 non-coding RNA RNA, small nucleolar Approved 15q22.31 15q22.31 U100 Small Cajal body-specific RNAs 847 2006-03-31 2013-09-05 692149 ENSG00000252712 uc010bhp.2 AY349601 NR_004388 14602913 SR0000210
HGNC:32572 SCARNA15 small Cajal body-specific RNA 15 non-coding RNA RNA, small nucleolar Approved 15q25.2 15q25.2 ACA45 Small Cajal body-specific RNAs 847 2006-03-31 2013-09-05 677778 ENSG00000252690 uc061xcp.1 AJ609485 NR_003011 RGD:7489047 612675 SR0000215
HGNC:32573 SCARNA16 small Cajal body-specific RNA 16 non-coding RNA RNA, small nucleolar Approved 17q25.2 17q25.2 ACA47 Small Cajal body-specific RNAs 847 2006-03-31 2015-01-30 677781 ENSG00000275143 uc061jcu.1 AJ609486 NR_003013 SR0000253
HGNC:32574 SCARNA17 small Cajal body-specific RNA 17 non-coding RNA RNA, small nucleolar Approved 18q21.1 18q21.1 "mgU12-22/U4-8|U91" Small Cajal body-specific RNAs 847 2006-03-31 2013-09-05 677769 ENSG00000251992 OTTHUMG00000179829 uc060pco.1 "BK005569|AY077741" NR_003003 15556860 615645 SR0000256
HGNC:32559 SCARNA18 small Cajal body-specific RNA 18 non-coding RNA RNA, small nucleolar Approved 5q14.2 05q14.2 "U109|SCARNA18A" Small Cajal body-specific RNAs 847 2006-03-31 2015-10-29 677765 ENSG00000238835 uc003khz.3 AM055742 NR_003139 16361266 611329 SR0000324
HGNC:52236 SCARNA18B small Cajal body-specific RNA 18B non-coding RNA RNA, small nucleolar Approved 1q31.2 01q31.2 2015-10-29 2015-10-29 107397392 ENSG00000238754 NR_135615
HGNC:32578 SCARNA20 small Cajal body-specific RNA 20 non-coding RNA RNA, small nucleolar Approved 17q23.2 17q23.2 ACA66 Small Cajal body-specific RNAs 847 2006-03-31 2013-09-05 677681 ENSG00000252577 uc060cwb.1 NR_002999 16373490 SR0000247
HGNC:32579 SCARNA21 small Cajal body-specific RNA 21 non-coding RNA RNA, small nucleolar Approved 17p13.1 17p13.1 "ACA68|SCARNA21A" Small Cajal body-specific RNAs 847 2006-03-31 2015-10-29 677763 ENSG00000252835 uc061hct.1 NR_003000 16373490 SR0000231
HGNC:52237 SCARNA21B small Cajal body-specific RNA 21B non-coding RNA RNA, small nucleolar Approved 1p36.21 01p36.21 2015-10-29 2015-10-29 107397391
HGNC:32580 SCARNA22 small Cajal body-specific RNA 22 non-coding RNA RNA, small nucleolar Approved 4p16.3 04p16.3 ACA11 Small Cajal body-specific RNAs 847 2006-03-31 2013-09-05 677770 ENSG00000249784 OTTHUMG00000161833 uc003gej.3 AJ609470 NR_003004 SR0000317
HGNC:32581 SCARNA23 small Cajal body-specific RNA 23 non-coding RNA RNA, small nucleolar Approved Xp22.11 Xp22.11 ACA12 Small Cajal body-specific RNAs 847 2006-03-31 2013-09-05 677773 ENSG00000251869 uc004dbo.1 AJ609482 NR_003007 SR0000367
HGNC:50385 SCARNA26A small Cajal body-specific RNA 26A non-coding RNA RNA, small nucleolar Approved 1q22 01q22 Small Cajal body-specific RNAs 847 2014-11-20 2015-09-30 106633810 NR_132762 25514182
HGNC:51394 SCARNA26B small Cajal body-specific RNA 26B non-coding RNA RNA, small nucleolar Approved 1q22 01q22 Small Cajal body-specific RNAs 847 2014-11-20 2016-02-08 106633816 NR_132763 25514182
HGNC:33614 SCARNA27 small Cajal body-specific RNA 27 non-coding RNA RNA, small nucleolar Approved 6p24.3 06p24.3 Small Cajal body-specific RNAs 847 2007-08-24 2011-04-13 100124533 AM413021 NR_003703
HGNC:50388 SCARNA28 small Cajal body-specific RNA 28 non-coding RNA RNA, small nucleolar Approved 7q22.1 07q22.1 ZL1 Small Cajal body-specific RNAs 847 2014-11-20 2015-09-30 106633801 NR_132754 25514182
HGNC:32557 SNORA1 small nucleolar RNA, H/ACA box 1 non-coding RNA RNA, small nucleolar Approved 11q21 11q21 ACA1 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2014-11-19 677792 ENSG00000206834 uc064mxy.1 AJ609425 NR_003026 "15199136|16381836" SR0000068
HGNC:52193 SNORA1B small nucleolar RNA, H/ACA box 1B non-coding RNA RNA, small nucleolar Approved 8q12.1 08q12.1 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32584 SNORA2A small nucleolar RNA, H/ACA box 2A non-coding RNA RNA, small nucleolar Approved 12q13.11 12q13.11 ACA2A Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677793 ENSG00000206612 uc001rsb.1 AJ609426 NR_002950 "15199136|16381836" SR0000077
HGNC:32585 SNORA2B small nucleolar RNA, H/ACA box 2B non-coding RNA RNA, small nucleolar Approved 12q13.11 12q13.11 ACA2b Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677794 ENSG00000207313 uc001rsc.1 AJ609427 NR_002951 "15199136|16381836" SR0000078
HGNC:32624 SNORA2C small nucleolar RNA, H/ACA box 2C non-coding RNA RNA, small nucleolar Approved 12q13.11 12q13.11 ACA34 SNORA34 small nucleolar RNA, H/ACA box 34 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-11-11 2015-11-11 2015-11-11 677815 ENSG00000221491 uc001rsa.3 AJ609443 NR_002968 "15199136|16381836" 615487 SR0000076
HGNC:32586 SNORA3A small nucleolar RNA, H/ACA box 3A non-coding RNA RNA, small nucleolar Approved 11p15.4 11p15.4 ACA3 "SNORA3|SNORA45A" "small nucleolar RNA, H/ACA box 3|small nucleolar RNA, H/ACA box 45A" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-11-11 2015-11-11 2015-11-11 619562 ENSG00000200983 uc064myo.1 AJ609428 NR_002580 "15199136|16381836" SR0000046
HGNC:32638 SNORA3B small nucleolar RNA, H/ACA box 3B non-coding RNA RNA, small nucleolar Approved 11p15.4 11p15.4 ACA3-2 "SNORA45|SNORA45B" "small nucleolar RNA, H/ACA box 45|small nucleolar RNA, H/ACA box 45B" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-11-11 2015-11-11 2015-11-11 677826 ENSG00000212607 AM055744 NR_002977 "16361266|16381836" 611333 SR0000047
HGNC:52203 SNORA3C small nucleolar RNA, H/ACA box 3C non-coding RNA RNA, small nucleolar Approved 16p13.3 16p13.3 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32587 SNORA4 small nucleolar RNA, H/ACA box 4 non-coding RNA RNA, small nucleolar Approved 3q27.3 03q27.3 ACA4 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 619568 ENSG00000263776 uc064drd.1 AJ609452 NR_002588 "15199136|16381836" SR0000316
HGNC:32588 SNORA5A small nucleolar RNA, H/ACA box 5A non-coding RNA RNA, small nucleolar Approved 7p13 07p13 ACA5 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 654319 ENSG00000206838 uc003tmz.3 AJ609453 NR_002919 "15199136|16381836" SR0000346
HGNC:32589 SNORA5B small nucleolar RNA, H/ACA box 5B non-coding RNA RNA, small nucleolar Approved 7p13 07p13 ACA5b Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677795 ENSG00000200656 uc003tna.4 NR_002990 "15199136|16381836" SR0000348
HGNC:32590 SNORA5C small nucleolar RNA, H/ACA box 5C non-coding RNA RNA, small nucleolar Approved 7p13 07p13 ACA5c Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677796 ENSG00000201772 uc064dls.1 NR_002991 "15199136|16381836" 611335 SR0000347
HGNC:32591 SNORA6 small nucleolar RNA, H/ACA box 6 non-coding RNA RNA, small nucleolar Approved 3p22.2 03p22.2 ACA6 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 574040 ENSG00000206760 uc062ikb.1 "AJ609429|AF375472" NR_002325 "15199136|16381836" SR0000304
HGNC:32592 SNORA7A small nucleolar RNA, H/ACA box 7A non-coding RNA RNA, small nucleolar Approved 3p25.2 03p25.2 ACA7 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 619563 ENSG00000207496 uc062gwu.1 AJ609430 NR_002582 "15199136|16381836" SR0000303
HGNC:32593 SNORA7B small nucleolar RNA, H/ACA box 7B non-coding RNA RNA, small nucleolar Approved 3q21.3 03q21.3 ACA7B Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677797 ENSG00000207088 uc003emf.2 NR_002992 "15199136|16381836" SR0000308
HGNC:32596 SNORA8 small nucleolar RNA, H/ACA box 8 non-coding RNA RNA, small nucleolar Approved 11q21 11q21 ACA8 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 654320 ENSG00000207304 uc063omb.1 AJ609454 NR_002920 "15199136|16381836" SR0000069
HGNC:32597 SNORA9 small nucleolar RNA, H/ACA box 9 non-coding RNA RNA, small nucleolar Approved 7p13 07p13 "ACA9|SNORA9A" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-10-28 677798 ENSG00000277184 uc058xko.1 AJ609431 NR_002952 "15199136|16381836" SR0000345
HGNC:52223 SNORA9B small nucleolar RNA, H/ACA box 9B non-coding RNA RNA, small nucleolar Approved 12q24.31 12q24.31 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32598 SNORA10 small nucleolar RNA, H/ACA box 10 non-coding RNA RNA, small nucleolar Approved 16p13.3 16p13.3 "ACA10|SNORA10A" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-10-28 574042 ENSG00000206811 uc002cnp.1 AJ609432 NR_002327 "15199136|16381836" SR0000216
HGNC:52188 SNORA10B small nucleolar RNA, H/ACA box 10B non-coding RNA RNA, small nucleolar Approved 2p23.1 02p23.1 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32599 SNORA11 small nucleolar RNA, H/ACA box 11 non-coding RNA RNA, small nucleolar Approved Xp11.21 Xp11.21 "U107|SNORA11A" small nucleolar RNA, H/ACA box 11A Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677799 ENSG00000221716 uc059cwa.1 AM055729 NR_002953 "16361266|16381836" 300662 SR0000368
HGNC:33620 SNORA11B small nucleolar RNA, H/ACA box 11B non-coding RNA RNA, small nucleolar Approved 14q32.12 14q32.12 small nucleolar RNA, H/ACA box 11B (retrotransposed) Small nucleolar RNAs, H/ACA box 846 2007-08-24 2012-06-21 2012-06-21 100124539 ENSG00000221102 uc010atw.4 AM413016 NR_003709 SR0000461
HGNC:33621 SNORA11C small nucleolar RNA, H/ACA box 11C non-coding RNA RNA, small nucleolar Approved Xp11.3 Xp11.3 small nucleolar RNA, H/ACA box 11C (retrotransposed) Small nucleolar RNAs, H/ACA box 846 2007-08-24 2012-06-21 2012-06-21 100124540 ENSG00000221459 uc010nhr.2 AM413017 NR_003710 SR0000462
HGNC:33622 SNORA11D small nucleolar RNA, H/ACA box 11D non-coding RNA RNA, small nucleolar Approved Xp11.22 Xp11.22 Small nucleolar RNAs, H/ACA box 846 2007-08-24 2008-09-09 100124541 ENSG00000221475 uc064zhz.1 AM413018 NR_003711 SR0000463
HGNC:33623 SNORA11E small nucleolar RNA, H/ACA box 11E non-coding RNA RNA, small nucleolar Approved Xp11.22 Xp11.22 Small nucleolar RNAs, H/ACA box 846 2007-08-24 2014-01-30 101340250 ENSG00000221705 uc064zho.1 AM413019 NR_102368 SR0000464
HGNC:52189 SNORA11F small nucleolar RNA, H/ACA box 11F non-coding RNA RNA, small nucleolar Approved 10q22.1 10q22.1 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:52190 SNORA11G small nucleolar RNA, H/ACA box 11G non-coding RNA RNA, small nucleolar Approved Xp11.21 Xp11.21 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32600 SNORA12 small nucleolar RNA, H/ACA box 12 non-coding RNA RNA, small nucleolar Approved 10q24.31 10q24.31 U108 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677800 ENSG00000212464 uc061jii.1 AM055730 NR_002954 "16361266|16381836" 611330 SR0000042
HGNC:32601 SNORA13 small nucleolar RNA, H/ACA box 13 non-coding RNA RNA, small nucleolar Approved 5q22.2 05q22.2 ACA13 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 654322 ENSG00000238363 uc003kpt.1 AJ609455 NR_002922 "3342024|15199136|16381836" SR0000325
HGNC:32602 SNORA14A small nucleolar RNA, H/ACA box 14A non-coding RNA RNA, small nucleolar Approved 7q11.23 07q11.23 ACA14a Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677801 ENSG00000201643 uc003udz.2 AJ609456 NR_002955 "15199136|16381836" SR0000351
HGNC:32603 SNORA14B small nucleolar RNA, H/ACA box 14B non-coding RNA RNA, small nucleolar Approved 1q42.3 01q42.3 ACA14b Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677802 ENSG00000207181 uc001hwm.1 AJ609457 NR_002956 "15199136|16381836" SR0000040
HGNC:32604 SNORA15 small nucleolar RNA, H/ACA box 15 non-coding RNA RNA, small nucleolar Approved 7p11.2 07p11.2 "ACA15|SNORA15A" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-11-11 677803 ENSG00000207168 uc064dyr.1 AJ609458 NR_002957 "15199136|16381836" SR0000349
HGNC:52191 SNORA15B-1 small nucleolar RNA, H/ACA box 15B-1 non-coding RNA RNA, small nucleolar Approved 7q11.21 07q11.21 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:52192 SNORA15B-2 small nucleolar RNA, H/ACA box 15B-2 non-coding RNA RNA, small nucleolar Approved 7q11.21 07q11.21 SNORA15C small nucleolar RNA, H/ACA box 15C Small nucleolar RNAs, H/ACA box 846 2016-11-18 2015-10-30 2016-11-18 27174936
HGNC:32605 SNORA16A small nucleolar RNA, H/ACA box 16A non-coding RNA RNA, small nucleolar Approved 1p35.3 01p35.3 ACA16 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-02-02 692073 ENSG00000274582 uc057dzj.1 AJ609433 NR_003035 "15199136|16381836" SR0000008
HGNC:32606 SNORA16B small nucleolar RNA, H/ACA box 16B non-coding RNA RNA, small nucleolar Approved 1q32.3 01q32.3 U98b Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 692157 ENSG00000201544 uc009xdf.2 AY349599 NR_004389 "14602913|16381836" SR0000038
HGNC:32607 SNORA17A small nucleolar RNA, H/ACA box 17A non-coding RNA RNA, small nucleolar Approved 9q34.3 09q34.3 ACA17 SNORA17 small nucleolar RNA, H/ACA box 17 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-11-11 2015-11-11 2015-11-11 677804 ENSG00000274998 uc062ghw.1 AJ609434 NR_002958 "15199136|16381836" SR0000366
HGNC:32636 SNORA17B small nucleolar RNA, H/ACA box 17B non-coding RNA RNA, small nucleolar Approved 9q34.3 09q34.3 ACA43 SNORA43 small nucleolar RNA, H/ACA box 43 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-11-11 2015-11-11 2015-11-11 677824 ENSG00000276161 uc058dwu.1 AJ609446 NR_002975 "15199136|16381836" SR0000365
HGNC:32608 SNORA18 small nucleolar RNA, H/ACA box 18 non-coding RNA RNA, small nucleolar Approved 11q21 11q21 ACA18 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677805 ENSG00000207145 uc062qcu.1 AJ609471 NR_002959 "15199136|16381836" SR0000071
HGNC:32609 SNORA19 small nucleolar RNA, H/ACA box 19 non-coding RNA RNA, small nucleolar Approved 10q26.11 10q26.11 ACA19 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 641451 ENSG00000207468 uc001ldv.4 AJ609435 NR_002917 "15199136|16381836" RGD:9685075 SR0000043
HGNC:32610 SNORA20 small nucleolar RNA, H/ACA box 20 non-coding RNA RNA, small nucleolar Approved 6q25.3 06q25.3 ACA20 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677806 ENSG00000207392 uc064xwp.1 AJ609459 NR_002960 "15199136|16381836" SR0000342
HGNC:52194 SNORA20B small nucleolar RNA, H/ACA box 20B non-coding RNA RNA, small nucleolar Approved 7p14.1 07p14.1 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32611 SNORA21 small nucleolar RNA, H/ACA box 21 non-coding RNA RNA, small nucleolar Approved 17q12 17q12 ACA21 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 619505 ENSG00000199293 uc060eok.1 AJ609436 NR_002576 "15199136|9047361|16381836" SR0000246
HGNC:52195 SNORA21B small nucleolar RNA, H/ACA box 21B non-coding RNA RNA, small nucleolar Approved 17q12 17q12 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32612 SNORA22 small nucleolar RNA, H/ACA box 22 non-coding RNA RNA, small nucleolar Approved 7q11.21 07q11.21 "ACA22|SNORA22A" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-10-28 677807 ENSG00000206634 uc058msa.1 AJ609437 NR_002961 "15199136|16381836" SR0000350
HGNC:52196 SNORA22B small nucleolar RNA, H/ACA box 22B non-coding RNA RNA, small nucleolar Approved 7p11.2 07p11.2 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:52197 SNORA22C small nucleolar RNA, H/ACA box 22C non-coding RNA RNA, small nucleolar Approved 7q11.21 07q11.21 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32613 SNORA23 small nucleolar RNA, H/ACA box 23 non-coding RNA RNA, small nucleolar Approved 11p15.4 11p15.4 ACA23 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677808 ENSG00000201998 uc001mhp.2 AJ609438 NR_002962 "15199136|16381836" SR0000048
HGNC:32614 SNORA24 small nucleolar RNA, H/ACA box 24 non-coding RNA RNA, small nucleolar Approved 4q26 04q26 "ACA24|SNORA24A" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-10-28 677809 ENSG00000275994 uc059kiy.1 AJ609460 NR_002963 "15199136|16381836" SR0000319
HGNC:52198 SNORA24B small nucleolar RNA, H/ACA box 24B non-coding RNA RNA, small nucleolar Approved 15q22.31 15q22.31 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32615 SNORA25 small nucleolar RNA, H/ACA box 25 non-coding RNA RNA, small nucleolar Approved 11q21 11q21 "ACA25|SNORA25A" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-10-28 684959 ENSG00000207112 uc058wju.1 AJ609461 NR_003028 "15199136|16381836" SR0000065
HGNC:52199 SNORA25B small nucleolar RNA, H/ACA box 25B non-coding RNA RNA, small nucleolar Approved 7q31.2 07q31.2 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32616 SNORA26 small nucleolar RNA, H/ACA box 26 non-coding RNA RNA, small nucleolar Approved 4q12 04q12 HBI-6 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677810 ENSG00000212588 uc057pey.1 NR_003016 "11387227|16381836" 614626 SR0000318
HGNC:32617 SNORA27 small nucleolar RNA, H/ACA box 27 non-coding RNA RNA, small nucleolar Approved 13q12.2 13q12.2 ACA27 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 619499 ENSG00000207051 uc021tdc.1 AJ609439 NR_002575 "15199136|16381836" SR0000084
HGNC:32618 SNORA28 small nucleolar RNA, H/ACA box 28 non-coding RNA RNA, small nucleolar Approved 14q32.32 14q32.32 ACA28 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-02-03 677811 ENSG00000272533 uc001ymv.1 AJ609462 NR_002964 "15199136|16381836" SR0000131
HGNC:32619 SNORA29 small nucleolar RNA, H/ACA box 29 non-coding RNA RNA, small nucleolar Approved 6q25.3 06q25.3 ACA29 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677812 ENSG00000206910 uc003qsv.1 AJ609472 NR_002965 "15199136|16381836" SR0000343
HGNC:32620 SNORA30 small nucleolar RNA, H/ACA box 30 non-coding RNA RNA, small nucleolar Approved 16p11.2 16p11.2 "ACA30|SNORA30A" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-10-28 677813 ENSG00000206755 uc060kur.1 AJ609440 NR_002966 "15199136|16381836" SR0000220
HGNC:52200 SNORA30B small nucleolar RNA, H/ACA box 30B non-coding RNA RNA, small nucleolar Approved 9p21.3 09p21.3 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32621 SNORA31 small nucleolar RNA, H/ACA box 31 non-coding RNA RNA, small nucleolar Approved 13q14.13 13q14.13 "ACA31|SNORA31A" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-10-30 677814 ENSG00000199477 uc001vaa.1 AJ609441 NR_002967 "15199136|16381836" SR0000085
HGNC:52201 SNORA31B small nucleolar RNA, H/ACA box 31B non-coding RNA RNA, small nucleolar Approved 13q14.13 13q14.13 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32622 SNORA32 small nucleolar RNA, H/ACA box 32 non-coding RNA RNA, small nucleolar Approved 11q21 11q21 ACA32 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 692063 ENSG00000206799 uc059dsj.1 AJ609442 NR_003032 "15199136|16381836" SR0000066
HGNC:32623 SNORA33 small nucleolar RNA, H/ACA box 33 non-coding RNA RNA, small nucleolar Approved 6q23.2 06q23.2 ACA33 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 594839 ENSG00000200534 uc063rmd.1 AJ609473 NR_002436 "15199136|16381836" SR0000341
HGNC:32625 SNORA35 small nucleolar RNA, H/ACA box 35 non-coding RNA RNA, small nucleolar Approved Xq23 Xq23 "HBI-36|SNORA35A" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-10-28 677816 ENSG00000208839 uc004epw.1 NR_002993 "15199136|16381836" SR0000370
HGNC:52202 SNORA35B small nucleolar RNA, H/ACA box 35B non-coding RNA RNA, small nucleolar Approved Xq23 Xq23 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32628 SNORA36A small nucleolar RNA, H/ACA box 36A non-coding RNA RNA, small nucleolar Approved Xq28 Xq28 ACA36 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677817 ENSG00000206948 uc004fmn.4 AJ609463 NR_002969 "15199136|16381836" SR0000374
HGNC:32629 SNORA36B small nucleolar RNA, H/ACA box 36B non-coding RNA RNA, small nucleolar Approved 1q41 01q41 ACA36b Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677818 ENSG00000222370 uc057pnx.1 NR_002994 "15199136|16381836" SR0000039
HGNC:33616 SNORA36C small nucleolar RNA, H/ACA box 36C non-coding RNA RNA, small nucleolar Approved 2p14 02p14 small nucleolar RNA, H/ACA box 36C (retrotransposed) Small nucleolar RNAs, H/ACA box 846 2007-08-24 2012-06-21 2012-06-21 100124535 ENSG00000207016 uc061jzw.1 AM413012 NR_003705 RGD:2325445 SR0000465
HGNC:32630 SNORA37 small nucleolar RNA, H/ACA box 37 non-coding RNA RNA, small nucleolar Approved 18q21.2 18q21.2 ACA37 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677819 ENSG00000207233 uc002lfi.1 AJ609444 NR_002970 "15199136|16381836" SR0000258
HGNC:32631 SNORA38 small nucleolar RNA, H/ACA box 38 non-coding RNA RNA, small nucleolar Approved 6p21.33 06p21.33 ACA38 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677820 ENSG00000200816 uc003nvd.3 AJ609474 NR_002971 "15199136|16381836" SR0000334
HGNC:33617 SNORA38B small nucleolar RNA, H/ACA box 38B non-coding RNA RNA, small nucleolar Approved 17q24.2 17q24.2 small nucleolar RNA, H/ACA box 38B (retrotransposed) Small nucleolar RNAs, H/ACA box 846 2007-08-24 2012-06-21 2012-06-21 100124536 ENSG00000200394 uc010dev.4 AM413013 NR_003706 SR0000466
HGNC:32633 SNORA40 small nucleolar RNA, H/ACA box 40 non-coding RNA RNA, small nucleolar Approved 11q21 11q21 "ACA40|SNORA40A" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-10-28 677822 ENSG00000210825 uc061nzg.1 AJ609445 NR_002973 "15199136|16381836" SR0000072
HGNC:52204 SNORA40B small nucleolar RNA, H/ACA box 40B non-coding RNA RNA, small nucleolar Approved 2q21.3 02q21.3 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:52205 SNORA40C small nucleolar RNA, H/ACA box 40C non-coding RNA RNA, small nucleolar Approved 6q21 06q21 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32634 SNORA41 small nucleolar RNA, H/ACA box 41 non-coding RNA RNA, small nucleolar Approved 2q33.3 02q33.3 "ACA41|SNORA41A" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-10-28 619569 ENSG00000207406 uc002vbj.3 AJ609464 NR_002590 "15199136|16381836" SR0000279
HGNC:52206 SNORA41B small nucleolar RNA, H/ACA box 41B non-coding RNA RNA, small nucleolar Approved 15q21.1 15q21.1 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32637 SNORA44 small nucleolar RNA, H/ACA box 44 non-coding RNA RNA, small nucleolar Approved 1p35.3 01p35.3 ACA44 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-02-03 677825 ENSG00000273544 uc057kxf.1 AJ609466 NR_002976 "15199136|16381836" SR0000007
HGNC:32639 SNORA46 small nucleolar RNA, H/ACA box 46 non-coding RNA RNA, small nucleolar Approved 16q21 16q21 ACA46 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677827 ENSG00000207493 uc002eny.1 AJ609467 NR_002978 "15199136|16381836" SR0000221
HGNC:32640 SNORA47 small nucleolar RNA, H/ACA box 47 non-coding RNA RNA, small nucleolar Approved 5q13.3 05q13.3 HBI-115 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677828 ENSG00000238961 uc003kew.1 NR_003014 "11387227|16381836" SR0000323
HGNC:32641 SNORA48 small nucleolar RNA, H/ACA box 48 non-coding RNA RNA, small nucleolar Approved 17p13.1 17p13.1 "ACA48|SNORA48A" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-10-28 652965 ENSG00000209582 uc002ghs.1 AJ609447 NR_002918 "15199136|16381836" SR0000228
HGNC:52207 SNORA48B small nucleolar RNA, H/ACA box 48B non-coding RNA RNA, small nucleolar Approved Xp22.33 Xp22.33 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32642 SNORA49 small nucleolar RNA, H/ACA box 49 non-coding RNA RNA, small nucleolar Approved 12q24.33 12q24.33 ACA49 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677829 ENSG00000208892 uc001ujo.4 AJ609476 NR_002979 "15199136|16381836" SR0000082
HGNC:32643 SNORA50A small nucleolar RNA, H/ACA box 50A non-coding RNA RNA, small nucleolar Approved 16q21 16q21 ACA50 "SNORA50|SNORA76A" "small nucleolar RNA, H/ACA box 50|small nucleolar RNA, H/ACA box 76A" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-11-11 2015-11-11 2015-11-11 677830 ENSG00000206952 uc063eet.1 AJ609468 NR_002980 "15199136|16381836" SR0000222
HGNC:50432 SNORA50B small nucleolar RNA, H/ACA box 50B non-coding RNA RNA, small nucleolar Approved 22q12.3 22q12.3 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32662 SNORA50C small nucleolar RNA, H/ACA box 50C non-coding RNA RNA, small nucleolar Approved 17q23.3 17q23.3 ACA62 "SNORA76|SNORA76C" "small nucleolar RNA, H/ACA box 76|small nucleolar RNA, H/ACA box 76C" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-11-11 2015-11-11 2015-11-11 677842 ENSG00000277887 uc059xfx.1 NR_002995 "15199136|16381836" SR0000249
HGNC:50433 SNORA50D small nucleolar RNA, H/ACA box 50D non-coding RNA RNA, small nucleolar Approved 5q13.2 05q13.2 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32644 SNORA51 small nucleolar RNA, H/ACA box 51 non-coding RNA RNA, small nucleolar Approved 20p13 20p13 ACA51 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-02-03 677831 ENSG00000271798 uc064cwo.1 AJ609477 NR_002981 "15199136|16381836" SR0000286
HGNC:32645 SNORA52 small nucleolar RNA, H/ACA box 52 non-coding RNA RNA, small nucleolar Approved 11p15.5 11p15.5 ACA52 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 619565 ENSG00000199785 uc001lrs.1 AJ609448 NR_002585 "15199136|16381836" SR0000044
HGNC:32646 SNORA53 small nucleolar RNA, H/ACA box 53 non-coding RNA RNA, small nucleolar Approved 12q23.1 12q23.1 ACA53 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677832 ENSG00000212443 uc001tfu.2 NR_003015 "15199136|16381836" SR0000081
HGNC:32647 SNORA54 small nucleolar RNA, H/ACA box 54 non-coding RNA RNA, small nucleolar Approved 11p15.4 11p15.4 ACA54 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677833 ENSG00000207008 uc001lxd.1 AJ609479 NR_002982 "15199136|16381836" SR0000045
HGNC:32649 SNORA55 small nucleolar RNA, H/ACA box 55 non-coding RNA RNA, small nucleolar Approved 1p34.3 01p34.3 ACA55 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677834 ENSG00000201457 uc001cdo.2 AJ609480 NR_002983 "15199136|16381836" SR0000012
HGNC:32650 SNORA56 small nucleolar RNA, H/ACA box 56 non-coding RNA RNA, small nucleolar Approved Xq28 Xq28 ACA56 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677835 ENSG00000206693 uc004fmo.3 AJ609449 NR_002984 "15199136|16381836" SR0000375
HGNC:32651 SNORA57 small nucleolar RNA, H/ACA box 57 non-coding RNA RNA, small nucleolar Approved 11q12.2 11q12.2 U99 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 692158 ENSG00000206597 uc009yoa.1 AY349600 NR_004390 "15199136|16381836" SR0000053
HGNC:32652 SNORA58 small nucleolar RNA, H/ACA box 58 non-coding RNA RNA, small nucleolar Approved 3q22.1 03q22.1 "ACA58|SNORA58B" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-10-28 677836 ENSG00000249020 uc057grz.1 AJ609450 NR_002985 "15199136|16381836" RGD:7489013 SR0000309
HGNC:52208 SNORA58B small nucleolar RNA, H/ACA box 58B non-coding RNA RNA, small nucleolar Approved 1q21.3 01q21.3 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32653 SNORA59A small nucleolar RNA, H/ACA box 59A non-coding RNA RNA, small nucleolar Approved 1p36.21 01p36.21 ACA59 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677885 ENSG00000239149 uc001atz.1 AJ609481 NR_003025 "15199136|16381836" SR0000241
HGNC:32658 SNORA59B small nucleolar RNA, H/ACA box 59B non-coding RNA RNA, small nucleolar Approved 17p11.2 17p11.2 ACA59 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2016-10-10 677882 ENSG00000266079 OTTHUMG00000178478 uc060cmc.1 NR_003022 "15199136|16381836" SR0000001
HGNC:32654 SNORA60 small nucleolar RNA, H/ACA box 60 non-coding RNA RNA, small nucleolar Approved 20q11.23 20q11.23 ACA60 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677837 ENSG00000199266 uc061wyo.1 AJ609469 NR_002986 "15199136|16381836" SR0000296
HGNC:32655 SNORA61 small nucleolar RNA, H/ACA box 61 non-coding RNA RNA, small nucleolar Approved 1p35.3 01p35.3 ACA61 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-02-03 677838 ENSG00000278274 uc001bqr.2 AJ609451 NR_002987 "15199136|16381836" SR0000006
HGNC:10107 SNORA62 small nucleolar RNA, H/ACA box 62 non-coding RNA RNA, small nucleolar Approved 3p22.1 03p22.1 "E2|E2-1" "RNE2|RNU108" RNA, U108 small nucleolar Small nucleolar RNAs, H/ACA box 846 1993-06-18 2006-04-05 2006-04-05 2013-06-27 6044 ENSG00000202363 uc064krt.1 "L07383|L22739" NR_002324 "8421699|8415643|16381836" MGI:2148179 180646 SR0000305
HGNC:10106 SNORA63 small nucleolar RNA, H/ACA box 63 non-coding RNA RNA, small nucleolar Approved 3q27.3 03q27.3 "E3|E3-2|SNORA63A" "RNE3|RNU107" RNA, U107 small nucleolar Small nucleolar RNAs, H/ACA box 846 1999-12-14 2006-04-05 2006-04-05 2015-10-28 6043 ENSG00000200320 uc062qoq.1 L07384 NR_002586 8421699 180647 SR0000315
HGNC:52209 SNORA63B small nucleolar RNA, H/ACA box 63B non-coding RNA RNA, small nucleolar Approved 3q27.3 03q27.3 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:52210 SNORA63C small nucleolar RNA, H/ACA box 63C non-coding RNA RNA, small nucleolar Approved 1p34.3 01p34.3 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:52211 SNORA63D small nucleolar RNA, H/ACA box 63D non-coding RNA RNA, small nucleolar Approved 3q27.1 03q27.1 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:52212 SNORA63E small nucleolar RNA, H/ACA box 63E non-coding RNA RNA, small nucleolar Approved 3q27.1 03q27.1 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:10221 SNORA64 small nucleolar RNA, H/ACA box 64 non-coding RNA RNA, small nucleolar Approved 16p13.3 16p13.3 U64 RNU64 RNA, U64 small nucleolar Small nucleolar RNAs, H/ACA box 846 1999-12-14 2006-04-05 2006-04-05 2013-09-05 26784 ENSG00000207405 uc064bps.1 Y11158 NR_002326 "15199136|16381836" MGI:2148175 SR0000217
HGNC:10222 SNORA65 small nucleolar RNA, H/ACA box 65 non-coding RNA RNA, small nucleolar Approved 9q33.3 09q33.3 U65 RNU65 RNA, U65 small nucleolar Small nucleolar RNAs, H/ACA box 846 1999-12-14 2006-04-05 2006-04-05 2013-09-05 26783 ENSG00000201302 uc004bra.2 Y11159 NR_002449 "9106664|15199136|16381836" SR0000358
HGNC:10223 SNORA66 small nucleolar RNA, H/ACA box 66 non-coding RNA RNA, small nucleolar Approved 1p22.1 01p22.1 U66 RNU66 RNA, U66 small nucleolar Small nucleolar RNAs, H/ACA box 846 1999-12-14 2006-04-05 2006-04-05 2013-09-05 26782 ENSG00000207523 uc009wdi.1 Y11160 NR_002444 "15199136|16381836" SR0000021
HGNC:10224 SNORA67 small nucleolar RNA, H/ACA box 67 non-coding RNA RNA, small nucleolar Approved 17p13.1 17p13.1 U67 RNU67 RNA, U67 small nucleolar Small nucleolar RNAs, H/ACA box 846 1999-12-14 2006-04-05 2006-04-05 2015-02-03 26781 ENSG00000277985 uc057npm.1 Y11161 NR_002912 "15199136|16381836" SR0000230
HGNC:10225 SNORA68 small nucleolar RNA, H/ACA box 68 non-coding RNA RNA, small nucleolar Approved 19p13.11 19p13.11 "U68|SNORA68A" RNU68 RNA, U68 small nucleolar Small nucleolar RNAs, H/ACA box 846 1999-12-14 2006-04-05 2006-04-05 2015-10-28 26780 ENSG00000207166 uc060wru.1 Y11162 NR_000012 "9106664|9182768" SR0000262
HGNC:52213 SNORA68B small nucleolar RNA, H/ACA box 68B non-coding RNA RNA, small nucleolar Approved 19q13.11 19q13.11 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:10226 SNORA69 small nucleolar RNA, H/ACA box 69 non-coding RNA RNA, small nucleolar Approved Xq24 Xq24 U69 RNU69 RNA, U69 small nucleolar Small nucleolar RNAs, H/ACA box 846 1999-12-14 2006-04-05 2006-04-05 2013-09-05 26779 ENSG00000206622 uc004ery.1 Y11163 NR_002584 "9106664|15199136|16381836" SR0000371
HGNC:10231 SNORA70 small nucleolar RNA, H/ACA box 70 non-coding RNA RNA, small nucleolar Approved Xq28 Xq28 "U70|DXS648E" RNU70 RNA, U70 small nucleolar Small nucleolar RNAs, H/ACA box 846 1999-12-14 2006-04-05 2006-04-05 2013-09-05 26778 ENSG00000207165 uc060tcj.1 Y11164 NR_000011 "9106664|15199136" SR0000373
HGNC:33618 SNORA70B small nucleolar RNA, H/ACA box 70B non-coding RNA RNA, small nucleolar Approved 2p15 02p15 small nucleolar RNA, H/ACA box 70B (retrotransposed) Small nucleolar RNAs, H/ACA box 846 2007-08-24 2012-06-21 2012-06-21 100124537 ENSG00000206937 uc010fck.2 AM413014 NR_003707 SR0000468
HGNC:33619 SNORA70C small nucleolar RNA, H/ACA box 70C non-coding RNA RNA, small nucleolar Approved 9q33.1 09q33.1 small nucleolar RNA, H/ACA box 70C (retrotransposed) Small nucleolar RNAs, H/ACA box 846 2007-08-24 2012-06-21 2012-06-21 100124538 ENSG00000207268 uc022bmp.2 AM413015 NR_003708 SR0000469
HGNC:34356 SNORA70D small nucleolar RNA, H/ACA box 70D non-coding RNA RNA, small nucleolar Approved 16q22.3 16q22.3 U70D small nucleolar RNA, H/ACA box 70D (retrotransposed) Small nucleolar RNAs, H/ACA box 846 2008-07-02 2012-06-21 2015-02-03 100379141 ENSG00000263666 uc021tkx.1 NR_033337 SR0000470
HGNC:34357 SNORA70E small nucleolar RNA, H/ACA box 70E non-coding RNA RNA, small nucleolar Approved 11q 11q U70E small nucleolar RNA, H/ACA box 70E (retrotransposed) Small nucleolar RNAs, H/ACA box 846 2008-07-02 2012-06-21 2012-06-21 100379250 ENSG00000207221 uc021qoe.1 NR_033347 SR0000471
HGNC:34358 SNORA70F small nucleolar RNA, H/ACA box 70F non-coding RNA RNA, small nucleolar Approved 2q24.3 02q24.3 U70F small nucleolar RNA, H/ACA box 70F (retrotransposed) Small nucleolar RNAs, H/ACA box 846 2008-07-02 2012-06-21 2012-06-21 100337591 ENSG00000206869 uc021vrw.1 NR_033309 SR0000472
HGNC:34359 SNORA70G small nucleolar RNA, H/ACA box 70G non-coding RNA RNA, small nucleolar Approved 12q14 12q14 U70G small nucleolar RNA, H/ACA box 70G (retrotransposed) Small nucleolar RNAs, H/ACA box 846 2008-07-02 2012-06-21 2012-06-21 100379132 ENSG00000206650 uc021rab.1 NR_033335 SR0000474
HGNC:52214 SNORA70H small nucleolar RNA, H/ACA box 70H non-coding RNA RNA, small nucleolar Approved 1q32.1 01q32.1 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:52215 SNORA70I small nucleolar RNA, H/ACA box 70I non-coding RNA RNA, small nucleolar Approved 2q35 02q35 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:52216 SNORA70J small nucleolar RNA, H/ACA box 70J non-coding RNA RNA, small nucleolar Approved 5q35.1 05q35.1 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:10232 SNORA71A small nucleolar RNA, H/ACA box 71A non-coding RNA RNA, small nucleolar Approved 20q11.23 20q11.23 U71a RNU71A RNA, U71A small nucleolar Small nucleolar RNAs, H/ACA box 846 1999-12-14 2006-04-05 2006-04-05 2015-02-03 26777 ENSG00000225091 uc002xim.2 Y11165 NR_002911 9106664 SR0000292
HGNC:10233 SNORA71B small nucleolar RNA, H/ACA box 71B non-coding RNA RNA, small nucleolar Approved 20q11.23 20q11.23 U71b RNU71B RNA, U71B small nucleolar Small nucleolar RNAs, H/ACA box 846 1999-12-14 2006-04-05 2006-04-05 2015-02-03 26776 ENSG00000235408 OTTHUMG00000032446 uc002xik.3 Y11166 NR_002910 9106664 SR0000291
HGNC:32656 SNORA71C small nucleolar RNA, H/ACA box 71C non-coding RNA RNA, small nucleolar Approved 20q11.23 20q11.23 U71c Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677839 ENSG00000201512 uc002xin.2 NR_003017 "15199136|16381836" SR0000293
HGNC:32657 SNORA71D small nucleolar RNA, H/ACA box 71D non-coding RNA RNA, small nucleolar Approved 20q11.23 20q11.23 U71d Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677840 ENSG00000200354 uc002xio.2 NR_003018 "15199136|16381836" SR0000294
HGNC:32632 SNORA71E small nucleolar RNA, H/ACA box 71E non-coding RNA RNA, small nucleolar Approved 20q11.23 20q11.23 ACA39 SNORA39 small nucleolar RNA, H/ACA box 39 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2014-04-25 2014-04-25 2015-02-03 677821 ENSG00000274309 AJ609475 NR_002972 "15199136|16381836" SR0000295
HGNC:10234 SNORA72 small nucleolar RNA, H/ACA box 72 non-coding RNA RNA, small nucleolar Approved 8q22.2 08q22.2 U72 RNU72 RNA, U72 small nucleolar Small nucleolar RNAs, H/ACA box 846 1999-12-14 2006-04-05 2006-04-05 2013-09-05 26775 ENSG00000207067 uc062qai.1 Y11167 NR_002581 9106664 SR0000355
HGNC:10115 SNORA73A small nucleolar RNA, H/ACA box 73A non-coding RNA RNA, small nucleolar Approved 1p36.1 01p36.1 "U17A|E1-7|E1b|E1" "RNE1|RNU17A" RNA, U17a small nucleolar Small nucleolar RNAs, H/ACA box 846 1993-08-24 2006-04-05 2006-04-05 2015-02-03 6080 ENSG00000274266 uc057dyl.1 "S63405|L16791|L07382" NR_002907 "8335005|8421699" 180645 SR0000003
HGNC:10116 SNORA73B small nucleolar RNA, H/ACA box 73B non-coding RNA RNA, small nucleolar Approved 1p35.3 01p35.3 "U17B|E1c" "RNU17B|RNU105A" "RNA, U17b small nucleolar|RNA, U105A small nucleolar" Small nucleolar RNAs, H/ACA box 846 1993-08-24 2006-04-05 2006-04-05 2015-07-09 26768 ENSG00000200087 uc031tvk.2 L16792 NR_004406 8335005 603239 SR0000004
HGNC:10119 SNORA74A small nucleolar RNA, H/ACA box 74A non-coding RNA RNA, small nucleolar Approved 5q31.2 05q31.2 U19 RNU19 RNA, U19 small nucleolar Small nucleolar RNAs, H/ACA box 846 1999-12-14 2006-04-05 2006-04-05 2013-09-05 26821 ENSG00000200959 uc003ldv.2 X94290 NR_002915 "8657112|9630250" SR0000327
HGNC:32660 SNORA74B small nucleolar RNA, H/ACA box 74B non-coding RNA RNA, small nucleolar Approved 5q35.1 05q35.1 U19-2 Small nucleolar RNAs, H/ACA box 846 2016-01-13 2016-01-13 677841 ENSG00000212402 uc003mce.2 AM055743 NR_002988 "15199136|16381836|16361266" 611331 SR0000328
HGNC:52217 SNORA74C-1 small nucleolar RNA, H/ACA box 74C-1 non-coding RNA RNA, small nucleolar Approved 10q11.23 10q11.23 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:52218 SNORA74C-2 small nucleolar RNA, H/ACA box 74C-2 non-coding RNA RNA, small nucleolar Approved 10q11.23 10q11.23 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:52219 SNORA74D small nucleolar RNA, H/ACA box 74D non-coding RNA RNA, small nucleolar Approved 5q31.2 05q31.2 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32661 SNORA75 small nucleolar RNA, H/ACA box 75 non-coding RNA RNA, small nucleolar Approved 2q37.1 02q37.1 "U23|SNORA75A" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-10-28 654321 ENSG00000206885 uc062vkw.1 AJ007015 NR_002921 "15199136|16381836" SR0000280
HGNC:52220 SNORA75B small nucleolar RNA, H/ACA box 75B non-coding RNA RNA, small nucleolar Approved 4p15.32 04p15.32 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32663 SNORA77 small nucleolar RNA, H/ACA box 77 non-coding RNA RNA, small nucleolar Approved 1q32.1 01q32.1 "ACA63|SNORA77A" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-10-28 677843 ENSG00000221643 uc057bzj.1 NR_003019 "15199136|16381836" SR0000037
HGNC:52221 SNORA77B small nucleolar RNA, H/ACA box 77B non-coding RNA RNA, small nucleolar Approved 22q11.21 22q11.21 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32664 SNORA78 small nucleolar RNA, H/ACA box 78 non-coding RNA RNA, small nucleolar Approved 16p13.3 16p13.3 ACA64 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-02-03 677844 ENSG00000273587 uc002cns.1 NR_003020 "15199136|16381836" SR0000218
HGNC:32665 SNORA79 small nucleolar RNA, H/ACA box 79 non-coding RNA RNA, small nucleolar Approved 14q31.1 14q31.1 "ACA65|SNORA79A" Small nucleolar RNAs, H/ACA box 846 2006-04-04 2015-10-28 677845 ENSG00000221303 uc001xvi.1 NR_003021 "15199136|16381836" SR0000088
HGNC:52222 SNORA79B small nucleolar RNA, H/ACA box 79B non-coding RNA RNA, small nucleolar Approved 14q11.2 14q11.2 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32666 SNORA80A small nucleolar RNA, H/ACA box 80A non-coding RNA RNA, small nucleolar Approved 21q22.11 21q22.11 ACA67 SNORA80 small nucleolar RNA, H/ACA box 80 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2014-04-25 2014-04-25 2014-04-25 677846 ENSG00000200792 NR_002996 "15199136|16381836" SR0000299
HGNC:34355 SNORA80B small nucleolar RNA, H/ACA box 80B non-coding RNA RNA, small nucleolar Approved 2p25.1 02p25.1 ACA67B Small nucleolar RNAs, H/ACA box 846 2008-07-02 2008-07-02 100302743 ENSG00000206633 uc021vdu.1 NR_028374 SR0000467
HGNC:50434 SNORA80C small nucleolar RNA, H/ACA box 80C non-coding RNA RNA, small nucleolar Approved 16p11.2 16p11.2 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:50435 SNORA80D small nucleolar RNA, H/ACA box 80D non-coding RNA RNA, small nucleolar Approved 7p22.1 07p22.1 Small nucleolar RNAs, H/ACA box 846 2016-11-18 2016-11-18 27174936
HGNC:32635 SNORA80E small nucleolar RNA, H/ACA box 80E non-coding RNA RNA, small nucleolar Approved 1q22 01q22 ACA42 SNORA42 small nucleolar RNA, H/ACA box 42 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2014-04-25 2014-04-25 2014-04-25 677823 ENSG00000207475 uc059tef.1 AJ609465 NR_002974 "15199136|16381836" SR0000024
HGNC:32667 SNORA81 small nucleolar RNA, H/ACA box 81 non-coding RNA RNA, small nucleolar Approved 3q27.3 03q27.3 HBI-61 Small nucleolar RNAs, H/ACA box 846 2006-04-04 2013-09-05 677847 ENSG00000221420 uc062rfb.1 AM055745 NR_002989 "15199136|16381836|16361266" 611334 SR0000314
HGNC:33615 SNORA84 small nucleolar RNA, H/ACA box 84 non-coding RNA RNA, small nucleolar Approved 9q22.31 09q22.31 Small nucleolar RNAs, H/ACA box 846 2007-08-24 2008-07-02 100124534 ENSG00000239183 uc064uhk.1 AM413009 NR_003704 SR0000475
HGNC:50390 SNORA86 small nucleolar RNA, H/ACA box 86 non-coding RNA RNA, small nucleolar Approved 10p11.22 10p11.22 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106633814 NR_132768 25514182
HGNC:50391 SNORA87 small nucleolar RNA, H/ACA box 87 non-coding RNA RNA, small nucleolar Approved 10q25.2 10q25.2 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635520 NR_132769 25514182
HGNC:50392 SNORA88 small nucleolar RNA, H/ACA box 88 non-coding RNA RNA, small nucleolar Approved 11p13 11p13 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635521 NR_132770 25514182
HGNC:50393 SNORA89 small nucleolar RNA, H/ACA box 89 non-coding RNA RNA, small nucleolar Approved 14q13.1 14q13.1 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635522 NR_132771 25514182
HGNC:50394 SNORA90 small nucleolar RNA, H/ACA box 90 non-coding RNA RNA, small nucleolar Approved 17q12 17q12 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635523 NR_132772 25514182
HGNC:50395 SNORA91 small nucleolar RNA, H/ACA box 91 non-coding RNA RNA, small nucleolar Approved 21q22.3 21q22.3 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635524 NR_132773 25514182
HGNC:50396 SNORA92 small nucleolar RNA, H/ACA box 92 non-coding RNA RNA, small nucleolar Approved 22q13.1 22q13.1 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635525 NR_132774 25514182
HGNC:50397 SNORA93 small nucleolar RNA, H/ACA box 93 non-coding RNA RNA, small nucleolar Approved 3p25.1 03p25.1 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635526 NR_132775 25514182
HGNC:50398 SNORA94 small nucleolar RNA, H/ACA box 94 non-coding RNA RNA, small nucleolar Approved 3p21.31 03p21.31 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635528 NR_132776 25514182
HGNC:50399 SNORA95 small nucleolar RNA, H/ACA box 95 non-coding RNA RNA, small nucleolar Approved 3p12.1 03p12.1 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635529 NR_132777 25514182
HGNC:50402 SNORA98 small nucleolar RNA, H/ACA box 98 non-coding RNA RNA, small nucleolar Approved 6q24.2 06q24.2 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635530 NR_132778 25514182
HGNC:50403 SNORA99 small nucleolar RNA, H/ACA box 99 non-coding RNA RNA, small nucleolar Approved 8p23.1 08p23.1 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635531 NR_132779 25514182
HGNC:50404 SNORA100 small nucleolar RNA, H/ACA box 100 non-coding RNA RNA, small nucleolar Approved 1q44 01q44 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635532 NR_132782 25514182
HGNC:50405 SNORA101A small nucleolar RNA, H/ACA box 101A non-coding RNA RNA, small nucleolar Approved 4q24 04q24 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2014-11-20 107399301 NR_135619 24174566
HGNC:50406 SNORA101B small nucleolar RNA, H/ACA box 101B non-coding RNA RNA, small nucleolar Approved 14q13.2 14q13.2 ZL4 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 107399303 NR_135620 24174566
HGNC:51395 SNORA103 small nucleolar RNA, H/ACA box 103 non-coding RNA RNA, small nucleolar Approved 1q25.1 01q25.1 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635533 NR_132783 25514182
HGNC:51396 SNORA104 small nucleolar RNA, H/ACA box 104 non-coding RNA RNA, small nucleolar Approved 19p13.12 19p13.12 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635534 NR_132784 25514182
HGNC:51397 SNORA105A small nucleolar RNA, H/ACA box 105A non-coding RNA RNA, small nucleolar Approved 5p14.3 05p14.3 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635539 NR_132787 25514182
HGNC:51398 SNORA105B small nucleolar RNA, H/ACA box 105B non-coding RNA RNA, small nucleolar Approved 2q33.1 02q33.1 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635540 NR_132788 25514182
HGNC:51399 SNORA105C small nucleolar RNA, H/ACA box 105C non-coding RNA RNA, small nucleolar Approved 12q13.3 12q13.3 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635541 NR_132789 25514182
HGNC:51400 SNORA107 small nucleolar RNA, H/ACA box 107 non-coding RNA RNA, small nucleolar Approved 13q31.1 13q31.1 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635542 NR_132852 25514182
HGNC:51401 SNORA108 small nucleolar RNA, H/ACA box 108 non-coding RNA RNA, small nucleolar Approved 18q21.32 18q21.32 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635543 NR_132963 25514182
HGNC:51402 SNORA109 small nucleolar RNA, H/ACA box 109 non-coding RNA RNA, small nucleolar Approved Xp11.21 Xp11.21 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635544 NR_132964 25514182
HGNC:51403 SNORA110 small nucleolar RNA, H/ACA box 110 non-coding RNA RNA, small nucleolar Approved 1p34.1 01p34.1 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635545 NR_132966 25514182
HGNC:51404 SNORA111 small nucleolar RNA, H/ACA box 111 non-coding RNA RNA, small nucleolar Approved 18q12.2 18q12.2 Small nucleolar RNAs, H/ACA box 846 2014-11-20 2015-09-30 106635546 NR_132967 25514182
HGNC:51850 SNORA112 small nucleolar RNA, H/ACA box 112 non-coding RNA RNA, small nucleolar Approved 2q11.2 02q11.2 Small nucleolar RNAs, H/ACA box 846 2015-09-18 2015-09-18
HGNC:51851 SNORA113 small nucleolar RNA, H/ACA box 113 non-coding RNA RNA, small nucleolar Approved 12q15 12q15 Small nucleolar RNAs, H/ACA box 846 2015-09-18 2015-09-18
HGNC:51852 SNORA114 small nucleolar RNA, H/ACA box 114 non-coding RNA RNA, small nucleolar Approved 7p22.3 07p22.3 Small nucleolar RNAs, H/ACA box 846 2015-09-18 2015-09-18
HGNC:51853 SNORA115 small nucleolar RNA, H/ACA box 115 non-coding RNA RNA, small nucleolar Approved 2q35 02q35 Small nucleolar RNAs, H/ACA box 846 2015-09-18 2015-09-18
HGNC:51854 SNORA116 small nucleolar RNA, H/ACA box 116 non-coding RNA RNA, small nucleolar Approved 6q25.3 06q25.3 Small nucleolar RNAs, H/ACA box 846 2015-09-18 2015-09-18
HGNC:51855 SNORA117 small nucleolar RNA, H/ACA box 117 non-coding RNA RNA, small nucleolar Approved 20q13.33 20q13.33 Small nucleolar RNAs, H/ACA box 846 2015-09-18 2015-09-18
HGNC:51856 SNORA118 small nucleolar RNA, H/ACA box 118 non-coding RNA RNA, small nucleolar Approved 19p13.11 19p13.11 Small nucleolar RNAs, H/ACA box 846 2015-09-18 2015-09-18
HGNC:51857 SNORA119 small nucleolar RNA, H/ACA box 119 non-coding RNA RNA, small nucleolar Approved Small nucleolar RNAs, H/ACA box 846 2015-09-18 2015-09-18
HGNC:51858 SNORA120 small nucleolar RNA, H/ACA box 120 non-coding RNA RNA, small nucleolar Approved 12p13.31 12p13.31 Small nucleolar RNAs, H/ACA box 846 2015-09-18 2015-09-18
HGNC:32556 SNORD1A small nucleolar RNA, C/D box 1A non-coding RNA RNA, small nucleolar Approved 17q25.1 17q25.1 "R38A|snR38A" Small nucleolar RNAs, C/D box 845 2006-04-05 2015-02-03 677848 ENSG00000278261 uc060kky.1 AJ543324 NR_004395 14960365 SR0000252
HGNC:32676 SNORD1B small nucleolar RNA, C/D box 1B non-coding RNA RNA, small nucleolar Approved 17q25.1 17q25.1 "R38B|snR38B" Small nucleolar RNAs, C/D box 845 2006-04-05 2013-09-05 677849 ENSG00000199961 uc010dgy.2 AJ543325 NR_004396 14960365 SR0000251
HGNC:32677 SNORD1C small nucleolar RNA, C/D box 1C non-coding RNA RNA, small nucleolar Approved 17q25.1 17q25.1 "R38C|snR38C" Small nucleolar RNAs, C/D box 845 2006-04-05 2015-02-03 677850 ENSG00000274091 uc060kkx.1 AJ543326 NR_004397 14960365 SR0000250
HGNC:32678 SNORD2 small nucleolar RNA, C/D box 2 non-coding RNA RNA, small nucleolar Approved 3q27.3 03q27.3 "R39B|snR39B" Small nucleolar RNAs, C/D box 845 2006-04-05 2013-09-05 619567 ENSG00000238942 uc057tjj.1 NR_002587 14960365 SR0000313
HGNC:33189 SNORD3A small nucleolar RNA, C/D box 3A non-coding RNA RNA, small nucleolar Approved 17p11.2 17p11.2 U3 Small nucleolar RNAs, C/D box 845 2006-11-28 2015-08-03 780851 ENSG00000263934 OTTHUMG00000178445 uc021trx.2 NR_006880 9365252 180710 SR0000239
HGNC:10168 SNORD3B-1 small nucleolar RNA, C/D box 3B-1 non-coding RNA RNA, small nucleolar Approved 17p11.2 17p11.2 "U3a|U3b1|U3b2" RNU3A1 RNA, U3A1 small nucleolar, RNA, U3A1 small nucleolar Small nucleolar RNAs, C/D box 845 1999-12-14 2006-11-28 2006-11-28 2016-07-20 26851 ENSG00000265185 OTTHUMG00000178499 uc060cic.1 "AF020534|AF020533|AF020532" NR_003271 9365252 SR0000236
HGNC:33190 SNORD3B-2 small nucleolar RNA, C/D box 3B-2 non-coding RNA RNA, small nucleolar Approved 17p11.2 17p11.2 "U3-2B|U3b2" Small nucleolar RNAs, C/D box 845 2006-11-28 2015-08-03 780852 ENSG00000262074 OTTHUMG00000178152 uc060cid.1 NR_003924 9365252 SR0000237
HGNC:33191 SNORD3C small nucleolar RNA, C/D box 3C non-coding RNA RNA, small nucleolar Approved 17p11.2 17p11.2 U3-3 Small nucleolar RNAs, C/D box 845 2006-11-28 2016-07-20 780853 ENSG00000264940 OTTHUMG00000178446 uc021try.2 NR_006881 9365252 SR0000240
HGNC:33192 SNORD3D small nucleolar RNA, C/D box 3D non-coding RNA RNA, small nucleolar Approved 17p11.2 17p11.2 U3-4 Small nucleolar RNAs, C/D box 845 2006-11-28 2015-02-05 780854 ENSG00000277947 uc060cim.1 NR_006882 9365252 SR0000238
HGNC:52238 SNORD3E small nucleolar RNA, C/D box 3E non-coding RNA RNA, small nucleolar Approved Xq13.1 Xq13.1 Small nucleolar RNAs, C/D box 845 2016-11-18 2016-11-18 27174936
HGNC:52239 SNORD3F small nucleolar RNA, C/D box 3F non-coding RNA RNA, small nucleolar Approved 8p21.3 08p21.3 Small nucleolar RNAs, C/D box 845 2016-11-18 2016-11-18 27174936
HGNC:52240 SNORD3G small nucleolar RNA, C/D box 3G non-coding RNA RNA, small nucleolar Approved 1p22.2 01p22.2 Small nucleolar RNAs, C/D box 845 2016-11-18 2016-11-18 27174936
HGNC:52241 SNORD3H small nucleolar RNA, C/D box 3H non-coding RNA RNA, small nucleolar Approved 8q22.1 08q22.1 Small nucleolar RNAs, C/D box 845 2016-11-18 2016-11-18 27174936
HGNC:52242 SNORD3I small nucleolar RNA, C/D box 3I non-coding RNA RNA, small nucleolar Approved 8p23.1 08p23.1 Small nucleolar RNAs, C/D box 845 2016-11-18 2016-11-18 27174936
HGNC:52243 SNORD3J small nucleolar RNA, C/D box 3J non-coding RNA RNA, small nucleolar Approved 10q11.21 10q11.21 Small nucleolar RNAs, C/D box 845 2016-11-18 2016-11-18 27174936
HGNC:52244 SNORD3K small nucleolar RNA, C/D box 3K non-coding RNA RNA, small nucleolar Approved 2q31.1 02q31.1 Small nucleolar RNAs, C/D box 845 2016-11-18 2016-11-18 27174936
HGNC:10097 SNORD4A small nucleolar RNA, C/D box 4A non-coding RNA RNA, small nucleolar Approved 17q11 17q11 "Z17A|mgh18S-121" RNU101A RNA, U101A small nucleolar Small nucleolar RNAs, C/D box 845 1999-12-14 2006-04-20 2006-04-20 2013-09-05 26773 ENSG00000238578 uc002hcl.2 AJ224024 NR_000010 9417910 SR0000243
HGNC:10098 SNORD4B small nucleolar RNA, C/D box 4B non-coding RNA RNA, small nucleolar Approved 17q11 17q11 Z17B RNU101B RNA, U101B small nucleolar Small nucleolar RNAs, C/D box 845 1999-12-14 2006-04-20 2006-04-20 2013-09-05 26772 ENSG00000238597 uc060ddt.1 AJ224025 NR_000009 9417910 SR0000376
HGNC:32702 SNORD5 small nucleolar RNA, C/D box 5 non-coding RNA RNA, small nucleolar Approved 11q21 11q21 mgh28S-2410 Small nucleolar RNAs, C/D box 845 2006-04-25 2013-09-05 692072 ENSG00000239195 uc064quc.1 AJ609488 NR_003033 15199136 SR0000070