Gm11780 (predicted gene 11780) - Rat Genome Database

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Gene: Gm11780 (predicted gene 11780) Mus musculus
Analyze
Symbol: Gm11780
Name: predicted gene 11780
RGD ID: 2295679
MGI Page MGI
Description:
Type: protein-coding (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: protein tyrosine phosphatase 4a2 pseudogene; protein tyrosine phosphatase 4a2-like
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3944,527,771 - 4,529,457 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl44,527,765 - 4,529,479 (-)EnsemblGRCm39 Ensembl
GRCm39 Ensembl44,528,204 - 4,528,719 (-)EnsemblGRCm39 Ensembl
GRCm3844,527,774 - 4,529,458 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl44,528,204 - 4,528,719 (-)EnsemblGRCm38mm10GRCm38
MGSCv3744,454,918 - 4,456,577 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3644,454,919 - 4,456,605 (-)NCBIMGSCv36mm8
Celera44,481,667 - 4,483,326 (-)NCBICelera
Cytogenetic Map4A1NCBI
cM Map42.54NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:12466851   PMID:16141072  


Genomics

Variants

.
Variants in Gm11780
43 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:31
Count of miRNA genes:31
Interacting mature miRNAs:31
Transcripts:ENSMUST00000136880
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
10412079Sm1_msusceptibility to Schistosoma mansoni infection 1 (mouse)Not determined4122955614Mouse
11567249Elorr3_methanol induced loss of righting response 3 (mouse)43722677156268235Mouse
11049579Lmr9b_mleishmaniasis resistance 9b (mouse)4120657234Mouse
11049580Lmr9a_mleishmaniasis resistance 9 (mouse)4120657234Mouse
1301510Bbaa13_mB.burgdorferi-associated arthritis 13 (mouse)Not determined4126395649Mouse
1301274Lmr9_mleishmaniasis resistance 9 (mouse)Not determined4120657234Mouse


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000136880
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl44,528,204 - 4,528,719 (-)Ensembl
GRCm38.p6 Ensembl44,528,204 - 4,528,719 (-)Ensembl
Ensembl Acc Id: ENSMUST00000251447
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl44,527,765 - 4,529,479 (-)Ensembl
Ensembl Acc Id: ENSMUST00000251448
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl44,527,771 - 4,529,459 (-)Ensembl
Ensembl Acc Id: ENSMUST00000251449
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl44,527,769 - 4,529,454 (-)Ensembl
RefSeq Acc Id: NM_001277919   ⟹   NP_001264848
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3944,527,771 - 4,529,457 (-)NCBI
GRCm3844,527,774 - 4,529,458 (-)NCBI
Celera44,481,670 - 4,483,354 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001264848 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001264848   ⟸   NM_001277919
- Sequence:

Promoters
RGD ID:6882746
Promoter ID:EPDNEW_M4823
Type:multiple initiation site
Name:Gm11780_1
Description:Mus musculus predicted gene 11780 , mRNA.
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
GRCm3844,529,457 - 4,529,517EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000085155 Ensembl
  ENSMUSG00000122227 Ensembl
MGD MGI:3650485 ENTREZGENE
NCBI Gene 622019 ENTREZGENE
PhenoGen Gm11780 PhenoGen