Gm3239 (predicted gene 3239) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Gm3239 (predicted gene 3239) Mus musculus
Analyze
No known orthologs.
Symbol: Gm3239
Name: predicted gene 3239
RGD ID: 2307666
MGI Page MGI
Description:
Type: protein-coding (Ensembl: unprocessed_pseudogene)
RefSeq Status: MODEL
Previously known as: 100041262; uncharacterized protein Gm3239
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391417,790,037 - 17,820,106 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1417,799,888 - 17,805,576 (-)EnsemblGRCm39 Ensembl
GRCm38144,649,612 - 4,679,736 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl144,664,192 - 4,670,850 (+)EnsemblGRCm38mm10GRCm38
MGSCv37144,763,845 - 4,772,827 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36144,753,644 - 4,773,940 (+)NCBIMGSCv36mm8
Cytogenetic Map14A2NCBI
cM Map142.53NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

.
Variants in Gm3239
1010 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:403
Count of miRNA genes:316
Interacting mature miRNAs:341
Transcripts:ENSMUST00000163525, ENSMUST00000169675
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
10412071Ssen3_msuseptibility to Sendai virus 3 (mouse)Not determined14126987934Mouse
11532711Sluc40_msusceptibility to lung cancer 40 (mouse)14127379943Mouse
13824988Phsq1_mpercent hyperactivated sperm QTL 1 (mouse)14305000119469772Mouse
1301991Wta3_mweight adult 3 (mouse)Not determined14388747337887650Mouse
4141550Dbm3_mdiabetes modifier 3 (mouse)Not determined514347339143596Mouse
4141265Appd2_mAPP associated premature death 2 (mouse)Not determined14594555230114862Mouse
4141864Mrdq4_mmodifier of retinal degeneration QTL 4 (mouse)Not determined992324548765082Mouse
1300779Dyscalc4_mdystrophic cardiac calcinosis 4 (mouse)Not determined141221287146213007Mouse
27226748Femd8_mfemur midshaft diameter 8, 10 week (mouse)141376927346737457Mouse
27226752Femd4_mfemur midshaft diameter 4, 5 week (mouse)141376927347237457Mouse
1300544Hypn_mhyperinsulinemia (mouse)Not determined141516061649160765Mouse


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_036158964 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC141630 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000163525   ⟹   ENSMUSP00000132382
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1417,799,888 - 17,805,576 (-)Ensembl
GRCm38.p6 Ensembl144,664,192 - 4,670,850 (+)Ensembl
RefSeq Acc Id: ENSMUST00000169675   ⟹   ENSMUSP00000133081
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl144,665,094 - 4,669,788 (+)Ensembl
RefSeq Acc Id: XM_036158964   ⟹   XP_036014857
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391417,790,037 - 17,820,106 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_036014857 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: ENSMUSP00000132382   ⟸   ENSMUST00000163525
RefSeq Acc Id: ENSMUSP00000133081   ⟸   ENSMUST00000169675
RefSeq Acc Id: XP_036014857   ⟸   XM_036158964
- UniProtKB: A0AA74KSW7 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-L7N2D9-F1-model_v2 AlphaFold L7N2D9 1-227 view protein structure


Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3781417 AgrOrtholog
Ensembl Genes ENSMUSG00000090872 Ensembl
MGD MGI:3781417 ENTREZGENE
NCBI Gene 100041262 ENTREZGENE
PhenoGen Gm3239 PhenoGen
UniProt A0AA74KSW7 ENTREZGENE