Gm5475 (predicted gene 5475) - 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: Gm5475 (predicted gene 5475) Mus musculus
Analyze
Symbol: Gm5475
Name: predicted gene 5475
RGD ID: 1623573
MGI Page MGI
Description:
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: EG432982
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3915100,321,074 - 100,326,031 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl15100,320,028 - 100,326,031 (+)EnsemblGRCm39 Ensembl
GRCm3815100,423,193 - 100,428,150 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl15100,422,147 - 100,428,150 (+)EnsemblGRCm38mm10GRCm38
MGSCv3715100,252,578 - 100,258,581 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3615100,251,227 - 100,256,184 (+)NCBIMGSCv36mm8
Celera15102,573,252 - 102,579,263 (+)NCBICelera
Cytogenetic Map15F1NCBI
cM Map1556.3NCBI
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:12477932   PMID:16141072   PMID:16141073  


Genomics

Variants

.
Variants in Gm5475
163 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:549
Count of miRNA genes:363
Interacting mature miRNAs:393
Transcripts:ENSMUST00000132119, ENSMUST00000148928
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
26884442Sklq6_mskull length QTL 6, 5 week (mouse)156129481100797881Mouse
1357526Hyplip2_mhyperlipidemia 2 (mouse)Not determined1512402203102896555Mouse
26884425Cvht2_mcranial vault height 2, 5 week (mouse)1528800146102008435Mouse
1558985Eae32_mexperimental allergic encephalomyelitis susceptibility 32 (mouse)Not determined1532578416103425899Mouse
26884399Humsd1_mhumerus midshaft diameter 1, 5 week (mouse)1548363396101708435Mouse
1302074Bmd4_mbone mineral density 4 (mouse)Not determined1556186708103425899Mouse
1302197Bhr2_mbronchial hyperresponsiveness 2 (mouse)Not determined1564306334103425899Mouse
4141921Pstc3_mperiosteal circumference 3 (mouse)Not determined1567270698101270847Mouse
1300627Sluc26_msusceptibility to lung cancer 26 (mouse)Not determined1570345653104073951Mouse
1300648Dbsty4_mdiabesity 4 (mouse)Not determined1570349271104073951Mouse
1300726Pitm4_mprion incubation time 4 (mouse)Not determined1570349271104073951Mouse
14747011Mancz13_mmandible centroid size 13 (mouse)1572382669104073951Mouse
12791003Aath8_maortic arch atherosclerosis 8 (mouse)1573430144104073951Mouse
1300851Heal4_mwound healing/regeneration 4 (mouse)Not determined1577527592104073951Mouse
4142060W3q6_mweight 3 weeks QTL 6 (mouse)Not determined78601103102901704Mouse
1357894Epfpq3_mepididymal fat percentage QTL 3 (mouse)Not determined1578601103102901704Mouse
14928306Manh79_mmandible shape 79 (mouse)1578847557104073951Mouse
12880411V125Dq11_mvitamin D active form serum level QTL 11 (mouse)1578897881104073951Mouse
10402490Dipa5_mdrug induced psychomotor activation 5 (mouse)Not determined1579163411104073951Mouse
4141897Imrfq2_mimmune response to Factor IX QTL 2 (mouse)Not determined79908940104073951Mouse
1301284Cosz3_mcocaine seizure 3 (mouse)Not determined1580313634104073951Mouse
4141902Cia37_mcollagen induced arthritis 37 (mouse)Not determined1580884933104073951Mouse
1300974Pgia9_mproteoglycan induced arthritis 9 (mouse)Not determined1580884933104073951Mouse
4141511Gdcr1_mglycerolphosphate dehydrogenase regulator 1 (mouse)Not determined82615474104073951Mouse
11530037Sluc34a_msusceptibility to lung cancer 34a (mouse)1585896437104073951Mouse
11530038Sluc34b_msusceptibility to lung cancer 34b (mouse)1585896437104073951Mouse
1357614Bmca_mbile mucin accumulation (mouse)Not determined1585896437104073951Mouse
1301918Skull22_mskull morphology 22 (mouse)Not determined1585901546104073951Mouse
4141581Dshv1_mdorsal hippocampal volume 1 (mouse)Not determined92788640103425899Mouse
14700689Carg5_mCandida albicans resistance gene 5 (mouse)1597697881103008427Mouse
11528547Sluc34_msusceptibility to lung cancer 34 (mouse)1597884933102896555Mouse


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000132119   ⟹   ENSMUSP00000114783
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl15100,320,028 - 100,325,356 (+)Ensembl
GRCm38.p6 Ensembl15100,422,147 - 100,427,475 (+)Ensembl
RefSeq Acc Id: ENSMUST00000148928   ⟹   ENSMUSP00000114462
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl15100,321,074 - 100,326,031 (+)Ensembl
GRCm38.p6 Ensembl15100,423,193 - 100,428,150 (+)Ensembl
RefSeq Acc Id: NR_040351
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3915100,321,074 - 100,326,031 (+)NCBI
GRCm3815100,423,193 - 100,428,150 (+)ENTREZGENE
Celera15102,574,298 - 102,579,263 (+)ENTREZGENE
cM Map15 ENTREZGENE
Sequence:
Protein Sequences
GenBank Protein AAI47351 (Get FASTA)   NCBI Sequence Viewer  
  AAI47352 (Get FASTA)   NCBI Sequence Viewer  
  BAE37220 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: ENSMUSP00000114783   ⟸   ENSMUST00000132119
RefSeq Acc Id: ENSMUSP00000114462   ⟸   ENSMUST00000148928

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3YV11-F1-model_v2 AlphaFold D3YV11 1-175 view protein structure

Promoters
RGD ID:6825956
Promoter ID:MM_KWN:19736
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day3,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   ES_Cell,   Kidney,   Lung,   MEF_B6
Transcripts:NM_001034883,   OTTMUST00000083446
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv3615100,251,916 - 100,253,392 (+)MPROMDB
RGD ID:8685060
Promoter ID:EPDNEW_M20555
Type:single initiation site
Name:Gm5475_1
Description:Mus musculus predicted gene 5475 , long 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
GRCm3815100,423,190 - 100,423,250EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000087444 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000148928 ENTREZGENE
MGD MGI:3646320 ENTREZGENE
NCBI Gene 432982 ENTREZGENE
PhenoGen Gm5475 PhenoGen
RNAcentral URS000075D640 RNACentral
UniProt Q3TR11_MOUSE UniProtKB/TrEMBL