Mir125a (microRNA 125a) - Rat Genome Database

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Gene: Mir125a (microRNA 125a) Mus musculus
Analyze
Symbol: Mir125a
Name: microRNA 125a
RGD ID: 1607653
MGI Page MGI
Description: Involved in several processes, including cellular response to estrogen stimulus; cellular response to leukemia inhibitory factor; and long-term synaptic potentiation. Localizes to synapse. Is expressed in several structures, including brain; early conceptus; lung; and oocyte. Orthologous to human MIR125A (microRNA 125a).
Type: ncrna
RefSeq Status: PROVISIONAL
Also known as: Mirn; Mirn125a
RGD Orthologs
Human
Rat
Dog
Pig
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391718,051,074 - 18,051,141 (+)NCBIGRCm39mm39
GRCm39 Ensembl1718,051,074 - 18,051,141 (+)Ensembl
GRCm381717,830,812 - 17,830,879 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1717,830,812 - 17,830,879 (+)EnsemblGRCm38mm10GRCm38
MGSCv371717,967,776 - 17,967,843 (+)NCBIGRCm37mm9NCBIm37
Celera1718,771,463 - 18,771,530 (+)NCBICelera
Cytogenetic Map17A3.2NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
BMP signaling pathway  (IGI)
cell aging  (IDA)
cellular response to cortisone stimulus  (ISO)
cellular response to estrogen stimulus  (IDA)
cellular response to glucose stimulus  (ISO)
cellular response to interleukin-6  (ISO)
cellular response to leukemia inhibitory factor  (IEP)
cellular response to lipopolysaccharide  (IDA)
cellular response to platelet-derived growth factor stimulus  (ISO)
cellular response to transforming growth factor beta stimulus  (ISO)
gene silencing by miRNA  (IDA)
L-ascorbic acid metabolic process  (ISO)
long-term synaptic potentiation  (IEP)
miRNA mediated inhibition of translation  (IDA)
negative regulation of interleukin-17 production  (ISO)
negative regulation of interleukin-6 production  (ISO)
negative regulation of osteoblast differentiation  (ISO)
negative regulation of stem cell differentiation  (IGI,IMP)
negative regulation of transforming growth factor beta production  (ISO)
negative regulation of vascular associated smooth muscle cell migration  (ISO)
negative regulation of vascular associated smooth muscle cell proliferation  (ISO)
positive regulation of fat cell differentiation  (ISO)
positive regulation of neuron death  (ISO)
positive regulation of vascular associated smooth muscle cell apoptotic process  (ISO)
positive regulation of vascular associated smooth muscle cell migration  (ISO)
positive regulation of vascular associated smooth muscle cell proliferation  (ISO)
regulation of cytokine production involved in inflammatory response  (ISO)
regulation of erythrocyte differentiation  (IDA)
regulation of progesterone biosynthetic process  (ISO)

Cellular Component
synapse  (IDA)

References

Additional References at PubMed
PMID:12007417   PMID:15845075   PMID:16247770   PMID:16381832   PMID:17369397   PMID:17604727   PMID:18347971   PMID:18452032   PMID:18729214   PMID:18762567   PMID:18791161   PMID:19559694  
PMID:19621438   PMID:19898466   PMID:20053268   PMID:20215419   PMID:20413612   PMID:20616003   PMID:20660734   PMID:20947512   PMID:21267068   PMID:21658607   PMID:22144232   PMID:22751012  
PMID:22897173   PMID:23012470   PMID:23045399   PMID:24151079   PMID:24381269   PMID:24598163   PMID:24675842   PMID:25092555   PMID:25715649   PMID:25733534   PMID:25751060   PMID:25854878  
PMID:25858512   PMID:25917095   PMID:25946189   PMID:25961914   PMID:25963922   PMID:26148871   PMID:26221592   PMID:26681446   PMID:26713860   PMID:26759236   PMID:26884460   PMID:26990797  
PMID:27424784   PMID:27565813   PMID:28111200   PMID:28445486   PMID:28445535   PMID:28710810   PMID:28976973   PMID:29106389   PMID:29393878   PMID:29594807   PMID:30089723   PMID:30214629  
PMID:30658076   PMID:30883005   PMID:30886165   PMID:30918291   PMID:30976285   PMID:31428926   PMID:33130085  


Genomics

Comparative Map Data
Mir125a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391718,051,074 - 18,051,141 (+)NCBIGRCm39mm39
GRCm39 Ensembl1718,051,074 - 18,051,141 (+)Ensembl
GRCm381717,830,812 - 17,830,879 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1717,830,812 - 17,830,879 (+)EnsemblGRCm38mm10GRCm38
MGSCv371717,967,776 - 17,967,843 (+)NCBIGRCm37mm9NCBIm37
Celera1718,771,463 - 18,771,530 (+)NCBICelera
Cytogenetic Map17A3.2NCBI
MIR125A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1951,693,254 - 51,693,339 (+)EnsemblGRCh38hg38GRCh38
GRCh381951,693,254 - 51,693,339 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371952,196,507 - 52,196,592 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361956,888,318 - 56,888,403 (+)NCBINCBI36hg18NCBI36
Celera1949,246,042 - 49,246,127 (+)NCBI
Cytogenetic Map19q13.41NCBI
HuRef1948,527,448 - 48,527,533 (+)NCBIHuRef
CHM1_11952,198,304 - 52,198,389 (+)NCBICHM1_1
Mir125a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2158,677,626 - 58,677,710 (+)NCBI
Rnor_6.0 Ensembl159,704,827 - 59,704,911 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0159,704,827 - 59,704,911 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0160,624,485 - 60,624,569 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera154,858,584 - 54,858,668 (+)NCBICelera
Cytogenetic Map1q12NCBI
MIR125A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11105,400,273 - 105,400,332 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1105,400,270 - 105,400,337 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1104,973,786 - 104,973,845 (-)NCBI
ROS_Cfam_1.01105,910,190 - 105,910,249 (-)NCBI
UMICH_Zoey_3.11105,582,422 - 105,582,481 (-)NCBI
UNSW_CanFamBas_1.01105,223,538 - 105,223,597 (-)NCBI
UU_Cfam_GSD_1.01106,018,313 - 106,018,372 (-)NCBI
MIR125A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl658,331,566 - 58,331,645 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1658,331,566 - 58,331,645 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2651,858,852 - 51,858,931 (+)NCBISscrofa10.2Sscrofa10.2susScr3


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301615Cfld3_mcystic fibrosis lung disease 3 (mouse)Not determined17126862710Mouse
1302140Wta4_mweight adult 4 (mouse)Not determined171660074750600869Mouse
1302152Skull25_mskull morphology 25 (mouse)Not determined171660074750600869Mouse
1558807Ceat1_mchronic experimental autoimmune thyroiditis 1 (mouse)Not determined171241779526182159Mouse
1302196Myaa1_mmodifier of Yaa 1 (mouse)Not determined17120924747Mouse
1302028Asbb3_mautoimmune susceptibility in C57BL/6J and BALB/c 3 (mouse)Not determined171065914544659245Mouse
1302038Radpf1_mradiation pulmonary fibrosis 1 (mouse)Not determined171661519333600869Mouse
1302042Acsns3_mAngiostrongylus costaricensis nematode susceptibility 3 (mouse)Not determined171724323451243371Mouse
1302070Tbbmd7_mtotal body bone mineral density 7 (mouse)Not determined171484267848842786Mouse
1302100Circp2_mcircadian photosensitivity 2 (mouse)Not determined17128979566Mouse
4141067Hbnr2_mHeligmosomoides bakeri nematode resistance 2 (mouse)Not determined1166699745667145Mouse
1301505Tir1_mtrypanosome infection response 1 (mouse)Not determined171660074750600869Mouse
1300787Cd8mts5_mCD8 memory T cell subset 5 (mouse)Not determined17836594042366175Mouse
1300890Bhr3_mbronchial hyperresponsiveness 3 (mouse)Not determined17392461548559063Mouse
1301935Skull24_mskull morphology 24 (mouse)Not determined17836594042366175Mouse
1357680Idd23_minsulin dependent diabetes susceptibility 23 (mouse)Not determined17392461526182159Mouse
4141215Mnic1_mmacronutrient intake, carbohydrate 1 (mouse)Not determined480447745359340Mouse
1300613Pcyts4_mplasmacytoma susceptibility 4 (mouse)Not determined17126862710Mouse
1300535Char3_mP. chabaudi malaria resistance QTL 3 (mouse)Not determined171724323451243371Mouse
1300706Alan1_malloantigen response 1 (mouse)Not determined17480447746158776Mouse
1558886Lgth9_mbody length 9 (mouse)Not determined171484267848842786Mouse
1357743Lith3_mlithogenic gene 3 (mouse)Not determined17125975624Mouse
1357902Obq19_mobesity QTL 19 (mouse)Not determined17125443244Mouse
4141272Tfv1_mtotal food volume 1 (mouse)Not determined480447765330362Mouse
1301327Lmr7_mleishmaniasis resistance 7 (mouse)Not determined17480447727496965Mouse
1301338Lmr1_mleishmaniasis resistance 1 (mouse)Not determined17986241186688972Mouse
1300914Pcir4_mperiosteal circumference 4 (mouse)Not determined171484267848842786Mouse
1357789Kdnw3_mkidney weight 3 (mouse)Not determined17480447747574740Mouse
1300995Fembrs4_mfemur breaking strength 4 (mouse)Not determined171484267848842786Mouse
1357452Vtbt18_mvertebral trabecular bone trait 18 (mouse)Not determined17120924747Mouse
4142150Stheal11_msoft tissue heal 11 (mouse)Not determined171206732483054339Mouse
4141608Phl1_mprogressive hearing loss 1 (mouse)Not determined17765701129268449Mouse
4142342Lfnq4_mlung function QTL 4 (mouse)Not determined1098759739053168Mouse
10412276Leci2_mleukocyte endothelial cell interactions 2 (mouse)Not determined17312791337128037Mouse
10043949Pbft7_mpercent body fat 7 (mouse)Not determined17667496240674962Mouse
10412083Sm2_msusceptibility to Schistosoma mansoni infection 2 (mouse)Not determined171681096950811104Mouse
10412214Sxbq3_mSGC/Knj cross B6 QTL 3 (mouse)Not determined171724323451243371Mouse
4142507Obrq13_mobesity resistance QTL 13 (mouse)Not determined1197944224857795Mouse
13452399Leusq6_mleucocytosis susceptibility QTL 6 (mouse)171724323451243371Mouse
13524851Asrq8_macoustic startle response 8 (mouse)17130809908Mouse
11081168Tir7_mtrypanosome infection response 7 (mouse)171390439847904522Mouse
12904946Tammq8_mtibialis anterior muscle mass QTL 8 (mouse)171223281346232813Mouse
12910527Nrq1a_mnoise-induced hearing loss resistant QTL 1a (mouse)17128979566Mouse
12910528Nrq1_mnoise-induced hearing loss resistant QTL 1 (mouse)17128979566Mouse
12910982Pifs2_mpeptide-induced fatal syndrome 2 (mouse)17125970523Mouse
14747010Mancz14_mmandible centroid size 14 (mouse)171177921045779210Mouse
13524847Asrq8a_macoustic startle response 8a (mouse)171242798746427987Mouse
13452396Leusq3_mleucocytosis susceptibility QTL 3 (mouse)171724323451243371Mouse

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Cbx7mmu-miR-125a-5pMirtarbaseexternal_infoChIP-seq//Luciferase reporter assayFunctional MTI22226354
Trim71mmu-miR-125a-5pMirtarbaseexternal_infoqRT-PCRNon-Functional MTI (Weak)19898466
Vsirmmu-miR-125a-5pMirtarbaseexternal_infoLuciferase reporter assay//Western blotFunctional MTI22751012
Lin28ammu-miR-125a-5pTarbaseexternal_infoOtherPOSITIVE
Sirt7mmu-miR-125a-5pOncomiRDBexternal_infoNANA23079745
Mmp11mmu-miR-125a-5pOncomiRDBexternal_infoNANA22768249
Tnfaip3mmu-miR-125a-5pOncomiRDBexternal_infoNANA22550173
Erbb2mmu-miR-125a-5pOncomiRDBexternal_infoNANA21220473
Pdpnmmu-miR-125a-5pOncomiRDBexternal_infoNANA20665731
Erbb2mmu-miR-125a-5pOncomiRDBexternal_infoNANA17110380

Predicted Targets
Summary Value
Count of predictions:27552
Count of gene targets:10728
Count of transcripts:18132
Interacting mature miRNAs:mmu-miR-125a-3p, mmu-miR-125a-5p
Prediction methods:Microtar, Miranda, Pita, Pita,Targetscan, 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.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000083545
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1717,830,812 - 17,830,879 (+)Ensembl
RefSeq Acc Id: NR_029539
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391718,051,074 - 18,051,141 (+)NCBI
GRCm381717,830,812 - 17,830,879 (+)ENTREZGENE
MGSCv371717,967,776 - 17,967,843 (+)RGD
Celera1718,771,463 - 18,771,530 (+)RGD
cM Map17 ENTREZGENE
Sequence:
Promoters
RGD ID:13674858
Promoter ID:EPDNEW_M21578
Type:single initiation site
Name:Mir125a_1
Description:Mus musculus microRNA 125a , microRNA.
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
GRCm381717,830,879 - 17,830,939EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2676809 AgrOrtholog
Ensembl Genes ENSMUSG00000065479 Ensembl, ENTREZGENE
Ensembl Transcript ENSMUST00000083545 ENTREZGENE
MGD MGI:2676809 ENTREZGENE
miRBase MI0000151 ENTREZGENE
NCBI Gene 387235 ENTREZGENE
PhenoGen Mir125a PhenoGen
RNAcentral URS00001F0C23 RNACentral
  URS00005A4DCF RNACentral
  URS000075AC06 RNACentral