Mir3960 (microRNA 3960) - 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: Mir3960 (microRNA 3960) Mus musculus
Analyze
Symbol: Mir3960
Name: microRNA 3960
RGD ID: 5134280
MGI Page MGI
Description: Acts upstream of or within positive regulation of osteoblast differentiation; regulation of gene expression; and regulation of miRNA metabolic process.
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: mmu-mir-3960
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39232,602,912 - 32,602,984 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl232,602,912 - 32,602,984 (-)EnsemblGRCm39 Ensembl
GRCm38232,712,900 - 32,712,972 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl232,712,900 - 32,712,972 (-)EnsemblGRCm38mm10GRCm38
Celera232,419,507 - 32,419,579 (-)NCBICelera
Cytogenetic Map2BNCBI
cM Map222.09NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:16381832   PMID:21324897   PMID:26221600   PMID:37230046  


Genomics

Variants

.
Variants in Mir3960
4 total Variants
miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:8807
Count of gene targets:5333
Count of transcripts:8115
Interacting mature miRNAs:mmu-miR-3960
Prediction methods:Microtar, Miranda, Pita, 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
1301769Orgwq2_morgan weight QTL 2 (mouse)Not determined2388712693421651Mouse
1301980Fcsa5_mfemoral cross-sectional area 5 (mouse)Not determined2767911541679261Mouse
1301790Pcfm1_mperiosteal circumference and femur length 1 (mouse)Not determined2823629642236396Mouse
10043876Adip22_madiposity 22 (mouse)Not determined2830805142308240Mouse
1300624Insq7_minsulin QTL 7 (mouse)Not determined2938444643384575Mouse
10755513Amzn4_manatomical modifier of Zfp423 4 (mouse)2938444643384575Mouse
8552707Cia23_mcollagen induced arthritis QTL 23 (mouse)Not determined21212953766556453Mouse
1301641Sbmd2_mspinal bone mineral density 2 (mouse)Not determined21421456748214713Mouse
1357881Estoq1_membryo survival total QTL 1 (mouse)Not determined220897778118894840Mouse
1357454Kidq1_mkidney weight QTL 1 (mouse)Not determined220897778118894840Mouse
1357436Splq1_mspleen weight QTL 1 (mouse)Not determined220897778118894840Mouse
39128209Lwq14_mliver weight QTL 14 (mouse)220897778118894840Mouse
1558899Egq1_mearly growth QTL 1 (mouse)Not determined220897778118894840Mouse
1558966W10q9_mweight 10 weeks QTL 9 (mouse)Not determined220897778118894840Mouse
1558915W3q1_mweight 3 weeks QTL 1 (mouse)Not determined220897778118894840Mouse
1558738W6q1_mweight 6 weeks QTL 1 (mouse)Not determined220897778118894840Mouse
1357681Hrtq1_mheart weight QTL 1 (mouse)Not determined220897778118894840Mouse
1301376Etohc1_methanol consumption 1 (mouse)Not determined22112972555129871Mouse
4141708Pbwg1.2_mpostnatal body weight growth 1.2 (mouse)Not determined2112972555129871Mouse
13463470Tubisq1_mtubulointerstitial injury severity, QTL 1 (mouse)22368914557689269Mouse
1302174Dssc2_mdextran sodium sulfate induced colitis QTL2 (mouse)Not determined224224632148700377Mouse
26884438Sklq12_mskull length QTL 12, 16 week (mouse)22459001254890012Mouse
8552705Cia25_mcollagen induced arthritis 25 (mouse)Not determined22467911533523172Mouse
8552706Cia24_mcollagen induced arthritis QTL 24 (mouse)Not determined22467911533523172Mouse
12792980Fbmd1_mfemoral bone mineral density 1, females only (mouse)22503449245034492Mouse
4142130Pgis2_mproteoglycan induced spondylitis 2 (mouse)Not determined22530805156971811Mouse
12904005Cfq2_mconditioned fear QTL 2 (mouse)22702264256396228Mouse
1300577Capsq1_mcapsaicin sensitivity related QTL 1 (mouse)Not determined22760206084013384Mouse
14746979Manh51_mmandible shape 51 (mouse)22896112962961129Mouse
14746997Mancz2_mmandible centroid size 2 (mouse)22896112962961129Mouse
4141854T2dm2sa_mtype 2 diabetes mellitus 2 in SMXA RI mice (mouse)Not determined229307947148374934Mouse
12904008Cfq6_mconditioned fear QTL 6 (mouse)23120303544508204Mouse
4141236Hbnr5_mHeligmosomoides bakeri nematode resistance 5 (mouse)Not determined31214567105143570Mouse


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NR_039536 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AL772271 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000198213
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl232,602,912 - 32,602,984 (-)Ensembl
GRCm38.p6 Ensembl232,712,900 - 32,712,972 (-)Ensembl
RefSeq Acc Id: NR_039536
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39232,602,912 - 32,602,984 (-)NCBI
GRCm38232,712,900 - 32,712,972 (-)ENTREZGENE
Celera232,419,507 - 32,419,579 (-)ENTREZGENE
cM Map2 ENTREZGENE
Sequence:

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000105841 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000198213 ENTREZGENE
MGD MGI:4950394 ENTREZGENE
miRBase MI0016963 ENTREZGENE
NCBI Gene 100628606 ENTREZGENE
PhenoGen Mir3960 PhenoGen
RNAcentral URS00003783AB RNACentral
  URS000075E9C2 RNACentral