IGSF11-AS1 (IGSF11 antisense RNA 1) - Rat Genome Database
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Gene: IGSF11-AS1 (IGSF11 antisense RNA 1) Homo sapiens
Analyze
Symbol: IGSF11-AS1
Name: IGSF11 antisense RNA 1
RGD ID: 5144523
Description:
Type: ncrna
RefSeq Status: VALIDATED
Also known as: RP4-635B5.1
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl3118,943,073 - 118,948,241 (+)EnsemblGRCh38hg38GRCh38
GRCh383118,943,076 - 118,948,241 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh373118,661,923 - 118,667,088 (+)NCBIGRCh37GRCh37hg19GRCh37
Celera3117,070,430 - 117,074,852 (+)NCBI
Cytogenetic Map3q13.32NCBI
HuRef3116,037,327 - 116,042,488 (+)NCBIHuRef
CHM1_13118,625,409 - 118,630,570 (+)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:12477932  


Genomics

Position Markers
RH94162  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh373118,666,007 - 118,666,176UniSTSGRCh37
Build 363120,148,697 - 120,148,866RGDNCBI36
Celera3117,074,510 - 117,074,679RGD
Cytogenetic Map3q13.32UniSTS
HuRef3116,041,407 - 116,041,576UniSTS
GeneMap99-GB4 RH Map3421.43UniSTS

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:163
Count of miRNA genes:158
Interacting mature miRNAs:163
Transcripts:ENST00000477009
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.


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 347
Low 3 4 9 23 4 16 2 33 7 2 18
Below cutoff 522 384 287 55 158 31 1067 567 1585 30 257 200 24 121 864

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000477009
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl3118,943,073 - 118,948,241 (+)Ensembl
RefSeq Acc Id: ENST00000669213
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl3118,943,131 - 118,947,844 (+)Ensembl
RefSeq Acc Id: NR_046230
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh383118,943,076 - 118,948,241 (+)NCBI
HuRef3116,037,327 - 116,042,488 (+)NCBI
CHM1_13118,625,409 - 118,630,570 (+)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 3q11.1-21.1(chr3:93886671-123216683)x1 copy number loss See cases [RCV000051543] Chr3:93886671..123216683 [GRCh38]
Chr3:93605515..122935530 [GRCh37]
Chr3:95088205..124418220 [NCBI36]
Chr3:3q11.1-21.1
pathogenic
GRCh38/hg38 3q13.11-29(chr3:103426882-198110178)x3 copy number gain See cases [RCV000134948] Chr3:103426882..198110178 [GRCh38]
Chr3:103145726..197837049 [GRCh37]
Chr3:104628416..199321446 [NCBI36]
Chr3:3q13.11-29
pathogenic
GRCh38/hg38 3q13.32-13.33(chr3:117844958-120797026)x4 copy number gain See cases [RCV000135591] Chr3:117844958..120797026 [GRCh38]
Chr3:117563805..120515873 [GRCh37]
Chr3:119046495..121998563 [NCBI36]
Chr3:3q13.32-13.33
uncertain significance
GRCh38/hg38 3q13.31-21.1(chr3:115019074-122513398)x1 copy number loss See cases [RCV000135961] Chr3:115019074..122513398 [GRCh38]
Chr3:114737921..122232245 [GRCh37]
Chr3:116220611..123714935 [NCBI36]
Chr3:3q13.31-21.1
pathogenic
GRCh38/hg38 3q13.31-13.32(chr3:116366433-119033600)x3 copy number gain See cases [RCV000138196] Chr3:116366433..119033600 [GRCh38]
Chr3:116085280..118752447 [GRCh37]
Chr3:117567970..120235137 [NCBI36]
Chr3:3q13.31-13.32
uncertain significance
GRCh38/hg38 3q13.2-21.3(chr3:112620977-128734134)x1 copy number loss See cases [RCV000139033] Chr3:112620977..128734134 [GRCh38]
Chr3:112339824..128452977 [GRCh37]
Chr3:113822514..129935667 [NCBI36]
Chr3:3q13.2-21.3
pathogenic
GRCh38/hg38 3q13.31-21.2(chr3:114122562-124532374)x1 copy number loss See cases [RCV000142009] Chr3:114122562..124532374 [GRCh38]
Chr3:113841409..124251221 [GRCh37]
Chr3:115324099..125733911 [NCBI36]
Chr3:3q13.31-21.2
pathogenic
GRCh38/hg38 3q11.1-24(chr3:93800620-145695381)x3 copy number gain See cases [RCV000142340] Chr3:93800620..145695381 [GRCh38]
Chr3:93519464..145413168 [GRCh37]
Chr3:95002154..146895858 [NCBI36]
Chr3:3q11.1-24
pathogenic
GRCh38/hg38 3q13.32-13.33(chr3:117844958-120826621)x4 copy number gain See cases [RCV000142877] Chr3:117844958..120826621 [GRCh38]
Chr3:117563805..120545468 [GRCh37]
Chr3:119046495..122028158 [NCBI36]
Chr3:3q13.32-13.33
uncertain significance
GRCh38/hg38 3q13.2-13.33(chr3:112520553-120031022)x1 copy number loss See cases [RCV000142725] Chr3:112520553..120031022 [GRCh38]
Chr3:112239400..119749869 [GRCh37]
Chr3:113722090..121232559 [NCBI36]
Chr3:3q13.2-13.33
pathogenic
GRCh38/hg38 3q13.32-21.3(chr3:118673898-126540730)x1 copy number loss See cases [RCV000143695] Chr3:118673898..126540730 [GRCh38]
Chr3:118392745..126259573 [GRCh37]
Chr3:119875435..127742263 [NCBI36]
Chr3:3q13.32-21.3
pathogenic
GRCh37/hg19 3p26.3-q29(chr3:61892-197851986)x3 copy number gain See cases [RCV000511055] Chr3:61892..197851986 [GRCh37]
Chr3:3p26.3-q29
pathogenic
GRCh37/hg19 3p26.3-q29(chr3:61892-197851986) copy number gain See cases [RCV000512358] Chr3:61892..197851986 [GRCh37]
Chr3:3p26.3-q29
pathogenic
GRCh37/hg19 3q13.31-21.1(chr3:115518341-122129283)x1 copy number loss not provided [RCV000682298] Chr3:115518341..122129283 [GRCh37]
Chr3:3q13.31-21.1
pathogenic
GRCh37/hg19 3p26.3-q29(chr3:60174-197948027)x3 copy number gain not provided [RCV000742133] Chr3:60174..197948027 [GRCh37]
Chr3:3p26.3-q29
pathogenic
GRCh37/hg19 3p26.3-q29(chr3:61495-197838262)x3 copy number gain not provided [RCV000742138] Chr3:61495..197838262 [GRCh37]
Chr3:3p26.3-q29
pathogenic

Additional Information

Database Acc Id Source(s)
COSMIC IGSF11-AS1 COSMIC
Ensembl Genes ENSG00000239877 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000477009 ENTREZGENE
GTEx ENSG00000239877 GTEx
HGNC ID HGNC:40777 ENTREZGENE
Human Proteome Map IGSF11-AS1 Human Proteome Map
NCBI Gene 100506765 ENTREZGENE
RNAcentral URS000075E47D RNACentral
UniGene Hs.660823 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-08-21 IGSF11-AS1  IGSF11 antisense RNA 1  IGSF11-AS1  IGSF11 antisense RNA 1 (non-protein coding)  Symbol and/or name change 5135510 APPROVED