Gm11978 (predicted gene 11978) - Rat Genome Database

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Gene: Gm11978 (predicted gene 11978) Mus musculus
Analyze
Symbol: Gm11978
Name: predicted gene 11978
RGD ID: 2303896
MGI Page MGI
Description:
Type: pseudo (Ensembl: transcribed_processed_pseudogene)
RefSeq Status: PROVISIONAL
Related Functional Gene: Chchd2  
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39116,600,148 - 6,610,236 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl116,600,148 - 6,610,233 (-)EnsemblGRCm39 Ensembl
GRCm39 Ensembl116,600,374 - 6,600,839 (-)EnsemblGRCm39 Ensembl
GRCm38116,650,148 - 6,660,236 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl116,650,148 - 6,660,233 (-)EnsemblGRCm38mm10GRCm38
MGSCv37116,550,151 - 6,560,239 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36116,544,069 - 6,555,988 (-)NCBIMGSCv36mm8
Celera117,123,942 - 7,134,026 (-)NCBICelera
Cytogenetic Map11A1NCBI
cM Map114.61NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:16141072   PMID:16141073  


Genomics

Variants

.
Variants in Gm11978
284 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:434
Count of miRNA genes:353
Interacting mature miRNAs:388
Transcripts:ENSMUST00000122315, ENSMUST00000127510, ENSMUST00000142928, ENSMUST00000143152
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.


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
27226741Metcl5_mmetatarsal-calcaneal length 5, 5 week (mouse)11465000046290827Mouse
27226735Metcl16_mmetatarsal-calcaneal length 16, 16 week (mouse)11525000035090827Mouse


Expression


Sequence


RefSeq Acc Id: ENSMUST00000122315
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl116,600,374 - 6,600,839 (-)Ensembl
GRCm38.p6 Ensembl116,650,374 - 6,650,839 (-)Ensembl
RefSeq Acc Id: ENSMUST00000127510
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl116,600,148 - 6,610,233 (-)Ensembl
GRCm38.p6 Ensembl116,650,148 - 6,660,233 (-)Ensembl
RefSeq Acc Id: ENSMUST00000142928
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl116,601,417 - 6,610,210 (-)Ensembl
GRCm38.p6 Ensembl116,651,417 - 6,660,210 (-)Ensembl
RefSeq Acc Id: ENSMUST00000143152
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl116,601,144 - 6,608,726 (-)Ensembl
GRCm38.p6 Ensembl116,651,144 - 6,658,726 (-)Ensembl
RefSeq Acc Id: NR_028586
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39116,600,148 - 6,610,236 (-)NCBI
GRCm38116,650,148 - 6,660,236 (-)ENTREZGENE
MGSCv37116,550,151 - 6,560,239 (-)RGD
Celera117,123,942 - 7,134,026 (-)RGD
cM Map11 ENTREZGENE
Sequence:
Promoters
RGD ID:8673928
Promoter ID:EPDNEW_M14994
Type:initiation region
Name:Gm11978_1
Description:Mus musculus predicted gene 11978 , non-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
GRCm38116,660,215 - 6,660,275EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000086373 Ensembl
  ENSMUSG00000121755 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000127510 ENTREZGENE
MGD MGI:3650695 ENTREZGENE
NCBI Gene 100041311 ENTREZGENE
PhenoGen Gm11978 PhenoGen