Gm11961 (predicted gene 11961) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Gm11961 (predicted gene 11961) Mus musculus
Analyze
Symbol: Gm11961
Name: predicted gene 11961
RGD ID: 1621979
MGI Page MGI
Description:
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: RP23-280J3.2
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39114,570,275 - 4,580,011 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl114,570,275 - 4,580,011 (-)EnsemblGRCm39 Ensembl
GRCm38114,620,275 - 4,630,011 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl114,620,275 - 4,630,011 (-)EnsemblGRCm38mm10GRCm38
MGSCv37114,520,278 - 4,530,014 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36114,520,278 - 4,527,769 (-)NCBIMGSCv36mm8
Celera115,121,442 - 5,131,176 (-)NCBICelera
Cytogenetic Map11A1NCBI
cM Map112.94NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:14610273   PMID:16141072   PMID:16141073   PMID:16602821   PMID:18799693   PMID:21267068   PMID:24316575  


Genomics

Variants

.
Variants in Gm11961
227 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:360
Count of miRNA genes:289
Interacting mature miRNAs:298
Transcripts:ENSMUST00000135775, ENSMUST00000141157
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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357722Vtbt11_mvertebral trabecular bone trait 11 (mouse)Not determined11123880487Mouse
1300768Tshp9_mtooth shape 9 (mouse)Not determined11125976374Mouse
1301765Skull15_mskull morphology 15 (mouse)Not determined11125976374Mouse
1300661Lmr6_mleishmaniasis resistance 6 (mouse)Not determined11125976374Mouse
10044008Hbnr15_mHeligmosomoides bakeri nematode resistance 15 (mouse)Not determined1122705234227232Mouse
1300599Cocrb11_mcocaine related behavior 11 (mouse)Not determined11267035536671472Mouse
27095914Pglq16_mpelvic girdle length QTL 16, 16 week (mouse)11325000018150000Mouse
27095919Pglq10_mpelvic girdle length QTL 10, 10 week (mouse)11325000018450000Mouse
27095925Pglq5_mpelvic girdle length QTL 5, 5 week (mouse)11325000019750000Mouse
27095904Scvln12_msacral vertebrae length 2, 10 week (mouse)11325000034495048Mouse
27095909Scvln6_msacral vertebrae length 2, 5 week (mouse)11325000044090827Mouse
27226798Scvln18_msacral vertebrae length 2, 16 week (mouse)11325000060690826Mouse
26884446Sklq10_mskull length QTL 10, 10 week (mouse)11325000062890826Mouse
26884453Sklq16_mskull length QTL 16, 16 week (mouse)11325000072690826Mouse
13208559Wght10_mweight 10 (mouse)11395000088890826Mouse
13208558Lgth12_mbody length 12 (mouse)11395000094890826Mouse
10053676Eae44a_mexperimental allergic encephalomyelitis susceptibility 44a (mouse)Not determined11450789621379532Mouse


Expression


Sequence


RefSeq Acc Id: ENSMUST00000135775
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl114,570,275 - 4,577,766 (-)Ensembl
GRCm38.p6 Ensembl114,620,275 - 4,627,766 (-)Ensembl
RefSeq Acc Id: ENSMUST00000141157
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl114,575,376 - 4,580,011 (-)Ensembl
GRCm38.p6 Ensembl114,625,376 - 4,630,011 (-)Ensembl
RefSeq Acc Id: NR_027797
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39114,575,376 - 4,580,011 (-)NCBI
GRCm38114,625,376 - 4,630,011 (-)NCBI
MGSCv37114,520,278 - 4,530,014 (-)RGD
Celera115,121,442 - 5,131,176 (-)RGD
cM Map11 ENTREZGENE
Sequence:
RefSeq Acc Id: NR_027798
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39114,570,275 - 4,577,766 (-)NCBI
GRCm38114,620,275 - 4,627,766 (-)NCBI
MGSCv37114,520,278 - 4,530,014 (-)RGD
Celera115,121,442 - 5,131,176 (-)RGD
cM Map11 ENTREZGENE
Sequence:
Protein Sequences
GenBank Protein BAC31898 (Get FASTA)   NCBI Sequence Viewer  
  EDL40482 (Get FASTA)   NCBI Sequence Viewer  

Promoters
RGD ID:8673800
Promoter ID:EPDNEW_M14931
Type:single initiation site
Name:Gm11961_1
Description:Mus musculus predicted gene 11961 , transcript variant 2, longnon-coding RNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38114,620,794 - 4,620,854EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000056288 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000135775 ENTREZGENE
  ENSMUST00000141157 ENTREZGENE
MGD MGI:3652303 ENTREZGENE
NCBI Gene 327860 ENTREZGENE
PhenoGen Gm11961 PhenoGen
RNAcentral URS000075CFF1 RNACentral
  URS000075F0A7 RNACentral
UniProt Q8C8V9_MOUSE UniProtKB/TrEMBL