MIR125A (microRNA mir-125a) - Rat Genome Database

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Gene: MIR125A (microRNA mir-125a) Sus scrofa
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Symbol: MIR125A
Name: microRNA mir-125a
RGD ID: 14139300
Description: microRNAs (miRNAs) are short (20-24 nt) non-coding RNAs that are involved in post-transcriptional regulation of gene expression in multicellular organisms by affecting both the stability and translation of mRNAs. miRNAs are transcribed by RNA polymerase II as part of capped and polyadenylated primary transcripts (pri-miRNAs) that can be either protein-coding or non-coding. The primary transcript is cleaved by the Drosha ribonuclease III enzyme to produce an approximately 70-nt stem-loop precursor miRNA (pre-miRNA), which is further cleaved by the cytoplasmic Dicer ribonuclease to generate the mature miRNA and antisense miRNA star (miRNA*) products. The mature miRNA is incorporated into a RNA-induced silencing complex (RISC), which recognizes target mRNAs through imperfect base pairing with the miRNA and most commonly results in translational inhibition or destabilization of the target mRNA. The RefSeq represents the predicted microRNA stem-loop. [provided by RefSeq, Sep 2009]
Type: ncrna
RefSeq Status: PROVISIONAL
Also known as: microRNA 125a; ssc-mir-125a
RGD Orthologs
Human
Mouse
Rat
Dog
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
BMP signaling pathway  (ISO)
cell aging  (ISO)
cellular response to cortisone stimulus  (ISO)
cellular response to estrogen stimulus  (ISO)
cellular response to glucose stimulus  (ISO)
cellular response to interleukin-6  (ISO)
cellular response to leukemia inhibitory factor  (ISO)
cellular response to lipopolysaccharide  (ISO)
cellular response to platelet-derived growth factor stimulus  (ISO)
cellular response to transforming growth factor beta stimulus  (ISO)
gene silencing by miRNA  (ISO)
L-ascorbic acid metabolic process  (ISO)
long-term synaptic potentiation  (ISO)
miRNA mediated inhibition of translation  (ISO)
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  (ISO)
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  (ISO)
regulation of progesterone biosynthetic process  (ISO)

Cellular Component
synapse  (ISO)

References
Additional References at PubMed
PMID:16381832   PMID:19917043   PMID:20180025   PMID:21312241   PMID:24499489   PMID:24952481   PMID:29414921  


Genomics

Comparative Map Data
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
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
(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
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2158,677,626 - 58,677,710 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl158,677,626 - 58,677,710 (+)Ensembl
Rnor_6.0159,704,827 - 59,704,911 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl159,704,827 - 59,704,911 (+)EnsemblRnor6.0rn6Rnor6.0
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


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system endocrine system nervous system reproductive system
High
Medium
Low 3 3 11 1
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_038541 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AEMK02000042 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSSSCT00000020936
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl658,331,566 - 58,331,645 (-)Ensembl
RefSeq Acc Id: NR_038541
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1658,331,566 - 58,331,645 (-)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000019341 Ensembl, ENTREZGENE
Ensembl Transcript ENSSSCT00000020936 ENTREZGENE
miRBase MI0013115 ENTREZGENE
NCBI Gene MIR125A ENTREZGENE
RNAcentral URS000008E301 RNACentral
  URS000075BBE2 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-04-02 MIR125A  microRNA mir-125a    microRNA 125a  Symbol and/or name change 5135510 APPROVED