SH3RF3-AS1 (SH3RF3 antisense RNA 1) - Rat Genome Database
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Gene: SH3RF3-AS1 (SH3RF3 antisense RNA 1) Homo sapiens
Analyze
Symbol: SH3RF3-AS1
Name: SH3RF3 antisense RNA 1
RGD ID: 6767497
HGNC Page HGNC
Description: INTERACTS WITH benzo[a]pyrene
Type: ncrna
RefSeq Status: VALIDATED
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2109,127,327 - 109,128,930 (-)EnsemblGRCh38hg38GRCh38
GRCh382109,127,327 - 109,130,119 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372109,743,783 - 109,746,575 (-)NCBIGRCh37GRCh37hg19GRCh37
Celera2104,053,548 - 104,056,346 (-)NCBI
Cytogenetic Map2q13NCBI
HuRef2103,341,676 - 103,344,449 (-)NCBIHuRef
CHM1_12109,748,096 - 109,750,869 (-)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:8619474   PMID:9110174  


Genomics

Position Markers
RH103435  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh372109,745,021 - 109,745,149UniSTSGRCh37
Build 362109,111,453 - 109,111,581RGDNCBI36
Celera2104,054,811 - 104,054,939RGD
Cytogenetic Map2q12.3UniSTS
Cytogenetic Map2q13UniSTS
HuRef2103,342,914 - 103,343,042UniSTS
GeneMap99-GB4 RH Map2387.9UniSTS

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:120
Count of miRNA genes:115
Interacting mature miRNAs:118
Transcripts:ENST00000567491
Prediction methods:Miranda, Rnahybrid, Targetscan
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.


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 entire extraembryonic component
High
Medium 6 181 21 102 4 10 1 4 12 99
Low 1944 1827 1196 141 726 76 3234 1555 2269 274 1265 1392 73 1197 2165 2
Below cutoff 425 917 444 404 914 307 969 610 1294 120 152 141 97 7 519

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000567491
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl2109,127,327 - 109,128,930 (-)Ensembl
RefSeq Acc Id: NR_029193
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382109,127,327 - 109,130,119 (-)NCBI
GRCh372109,743,783 - 109,746,575 (-)NCBI
HuRef2103,341,676 - 103,344,449 (-)NCBI
CHM1_12109,748,096 - 109,750,869 (-)NCBI
Sequence:
Protein Sequences
GenBank Protein BAH12566 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 2q12.3-13(chr2:108593876-109700179)x3 copy number gain See cases [RCV000053142] Chr2:108593876..109700179 [GRCh38]
Chr2:109210332..110457756 [GRCh37]
Chr2:108576764..109815045 [NCBI36]
Chr2:2q12.3-13
uncertain significance
GRCh38/hg38 2q12.3-13(chr2:107962353-109700179)x1 copy number loss See cases [RCV000134167] Chr2:107962353..109700179 [GRCh38]
Chr2:108578809..110457756 [GRCh37]
Chr2:107945241..109815045 [NCBI36]
Chr2:2q12.3-13
pathogenic|uncertain significance
GRCh38/hg38 2q12.3-13(chr2:108593876-109700179)x1 copy number loss See cases [RCV000135738] Chr2:108593876..109700179 [GRCh38]
Chr2:109210332..110457756 [GRCh37]
Chr2:108576764..109815045 [NCBI36]
Chr2:2q12.3-13
uncertain significance
GRCh38/hg38 2q12.3-13(chr2:108681906-109700179)x3 copy number gain See cases [RCV000136575] Chr2:108681906..109700179 [GRCh38]
Chr2:109298362..110457756 [GRCh37]
Chr2:108664794..109815045 [NCBI36]
Chr2:2q12.3-13
likely benign|uncertain significance
GRCh38/hg38 2q13(chr2:108719125-110611314)x3 copy number gain See cases [RCV000137361] Chr2:108719125..110611314 [GRCh38]
Chr2:109335581..111368891 [GRCh37]
Chr2:108702013..111085360 [NCBI36]
Chr2:2q13
uncertain significance
GRCh38/hg38 2q11.2-13(chr2:101710825-110791418)x3 copy number gain See cases [RCV000138645] Chr2:101710825..110791418 [GRCh38]
Chr2:102327287..111548995 [GRCh37]
Chr2:101693719..111265466 [NCBI36]
Chr2:2q11.2-13
pathogenic
GRCh38/hg38 2q12.2-13(chr2:106516472-110576905)x3 copy number gain See cases [RCV000139569] Chr2:106516472..110576905 [GRCh38]
Chr2:107132928..111334482 [GRCh37]
Chr2:106499360..110857227 [NCBI36]
Chr2:2q12.2-13
uncertain significance
GRCh38/hg38 2q12.2-14.1(chr2:106428663-112379067)x3 copy number gain See cases [RCV000140834] Chr2:106428663..112379067 [GRCh38]
Chr2:107045119..113136644 [GRCh37]
Chr2:106411551..112853115 [NCBI36]
Chr2:2q12.2-14.1
uncertain significance
GRCh38/hg38 2q11.1-13(chr2:94678532-110602409)x3 copy number gain See cases [RCV000141075] Chr2:94678532..110602409 [GRCh38]
Chr2:95344257..111359986 [GRCh37]
Chr2:94707984..111076455 [NCBI36]
Chr2:2q11.1-13
pathogenic
GRCh38/hg38 2q12.3-13(chr2:108660713-109735214)x1 copy number loss See cases [RCV000141950] Chr2:108660713..109735214 [GRCh38]
Chr2:109277169..110492791 [GRCh37]
Chr2:108643601..109850080 [NCBI36]
Chr2:2q12.3-13
uncertain significance
GRCh38/hg38 2q12.3-13(chr2:108526866-109746741)x1 copy number loss See cases [RCV000142089] Chr2:108526866..109746741 [GRCh38]
Chr2:109143322..110504318 [GRCh37]
Chr2:108509754..109861607 [NCBI36]
Chr2:2q12.3-13
uncertain significance
GRCh38/hg38 2q12.3-13(chr2:108579001-109736559)x1 copy number loss See cases [RCV000051261] Chr2:108579001..109736559 [GRCh38]
Chr2:109195457..110494136 [GRCh37]
Chr2:108561889..109851425 [NCBI36]
Chr2:2q12.3-13
pathogenic
GRCh38/hg38 2q11.2-13(chr2:97672522-110211318)x3 copy number gain See cases [RCV000052947] Chr2:97672522..110211318 [GRCh38]
Chr2:98288985..110968895 [GRCh37]
Chr2:97655417..110326184 [NCBI36]
Chr2:2q11.2-13
pathogenic
GRCh38/hg38 2q12.2-13(chr2:106696282-110223328)x3 copy number gain See cases [RCV000053141] Chr2:106696282..110223328 [GRCh38]
Chr2:107312738..110980905 [GRCh37]
Chr2:106679170..110338194 [NCBI36]
Chr2:2q12.2-13
uncertain significance

Additional Information

Database Acc Id Source(s)
COSMIC SH3RF3-AS1 COSMIC
Ensembl Genes ENSG00000259863 Ensembl
GTEx ENSG00000259863 GTEx
HGNC ID HGNC:44168 ENTREZGENE
Human Proteome Map SH3RF3-AS1 Human Proteome Map
NCBI Gene SH3RF3-AS1 ENTREZGENE
RNAcentral URS000075DE07 RNACentral
UniGene Hs.171244 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-08-21 SH3RF3-AS1  SH3RF3 antisense RNA 1  SH3RF3-AS1  SH3RF3 antisense RNA 1 (non-protein coding)  Symbol and/or name change 5135510 APPROVED