SNORA1 (small nucleolar RNA, H/ACA box 1) - Rat Genome Database

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Gene: SNORA1 (small nucleolar RNA, H/ACA box 1) Homo sapiens
Analyze
Symbol: SNORA1
Name: small nucleolar RNA, H/ACA box 1
RGD ID: 1602758
HGNC Page HGNC:32557
Description: Predicted to be involved in RNA processing. Predicted to be located in nucleolus; INTERACTS WITH (-)-epigallocatechin 3-gallate; benzo[a]pyrene; chromium(6+).
Type: snorna
RefSeq Status: VALIDATED
Previously known as: ACA1
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381193,732,004 - 93,732,133 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1193,732,004 - 93,732,133 (-)EnsemblGRCh38hg38GRCh38
GRCh371193,465,170 - 93,465,299 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361193,104,818 - 93,104,947 (-)NCBINCBI36Build 36hg18NCBI36
Celera1190,756,622 - 90,756,751 (-)NCBICelera
Cytogenetic Map11q21NCBI
HuRef1189,542,403 - 89,542,532 (-)NCBIHuRef
CHM1_11193,348,183 - 93,348,312 (-)NCBICHM1_1
T2T-CHM13v2.01193,648,385 - 93,648,514 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleolus  (IEA)

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15199136   PMID:16381836   PMID:19446021  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 11q13.5-22.1(chr11:75941754-98357960)x1 copy number loss See cases [RCV000133838] Chr11:75941754..98357960 [GRCh38]
Chr11:75652798..98228688 [GRCh37]
Chr11:75330446..97733898 [NCBI36]
Chr11:11q13.5-22.1		 pathogenic
GRCh38/hg38 11q14.3-22.3(chr11:91086659-109595582)x1 copy number loss See cases [RCV000138038] Chr11:91086659..109595582 [GRCh38]
Chr11:90819827..109466308 [GRCh37]
Chr11:90459475..108971518 [NCBI36]
Chr11:11q14.3-22.3		 pathogenic
GRCh38/hg38 11q14.1-22.3(chr11:78232836-106779420)x1 copy number loss See cases [RCV000052710] Chr11:78232836..106779420 [GRCh38]
Chr11:77943882..106650146 [GRCh37]
Chr11:77621530..106155356 [NCBI36]
Chr11:11q14.1-22.3		 pathogenic
GRCh38/hg38 11q14.1-22.2(chr11:85242847-102920097)x1 copy number loss See cases [RCV000052711] Chr11:85242847..102920097 [GRCh38]
Chr11:84953891..102738968 [GRCh37]
Chr11:84631539..102296037 [NCBI36]
Chr11:11q14.1-22.2		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:41
Count of miRNA genes:40
Interacting mature miRNAs:41
Transcripts:ENST00000384107
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

Markers in Region
D11S4684  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371193,466,267 - 93,466,435UniSTSGRCh37
Build 361193,105,915 - 93,106,083RGDNCBI36
Celera1190,757,719 - 90,757,887RGD
Cytogenetic Map11q21UniSTS
HuRef1189,543,500 - 89,543,668UniSTS
TNG Radiation Hybrid Map1143202.0UniSTS
Stanford-G3 RH Map114075.0UniSTS
NCBI RH Map11785.0UniSTS
GeneMap99-G3 RH Map114075.0UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system adipose tissue appendage
High
Medium 38 91 26 17 182 22 100 90 183 67 125
Low 1978 2129 1309 364 807 204 3525 1499 2163 99 991 1030 160 1119 2337
Below cutoff 141 449 65 16 187 16 227 407 811 10 28 11 1 12 212

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000384107
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1193,732,004 - 93,732,133 (-)Ensembl
RefSeq Acc Id: NR_003026
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381193,732,004 - 93,732,133 (-)NCBI
GRCh371193,465,170 - 93,465,299 (-)RGD
Build 361193,104,818 - 93,104,947 (-)NCBI Archive
Celera1190,756,622 - 90,756,751 (-)RGD
HuRef1189,542,403 - 89,542,532 (-)ENTREZGENE
CHM1_11193,348,183 - 93,348,312 (-)NCBI
T2T-CHM13v2.01193,648,385 - 93,648,514 (-)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC SNORA1 COSMIC
Ensembl Genes ENSG00000206834 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000384107 ENTREZGENE
GTEx ENSG00000206834 GTEx
HGNC ID HGNC:32557 ENTREZGENE
Human Proteome Map SNORA1 Human Proteome Map
NCBI Gene 677792 ENTREZGENE
PharmGKB PA144596350 PharmGKB
RNAcentral URS00004ACFCF RNACentral