Mir138-2 (microRNA 138-2) - Rat Genome Database

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Gene: Mir138-2 (microRNA 138-2) Rattus norvegicus
Analyze
Symbol: Mir138-2
Name: microRNA 138-2
RGD ID: 2325569
Description: Predicted to enable mRNA 3'-UTR binding activity and mRNA base-pairing translational repressor activity. Predicted to be involved in several processes, including negative regulation of adipose tissue development; negative regulation of cell differentiation; and negative regulation of protein metabolic process. Predicted to act upstream of or within several processes, including female sex differentiation; long-term synaptic potentiation; and myelination. Predicted to be located in cytoplasm. Orthologous to human MIR138-2 (microRNA 138-2); INTERACTS WITH bisphenol A; 2-hydroxypropanoic acid (ortholog); arsane (ortholog).
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: microRNA mir-138-2; rno-mir-138-2
RGD Orthologs
Human
Mouse
Dog
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81910,680,133 - 10,680,214 (-)NCBIGRCr8
mRatBN7.21910,674,193 - 10,674,274 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1910,674,193 - 10,674,274 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1910,637,411 - 10,637,492 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01911,404,249 - 11,404,330 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01910,691,239 - 10,691,320 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01911,149,748 - 11,149,829 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1911,149,748 - 11,149,829 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01911,127,479 - 11,127,560 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Cytogenetic Map19p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Cellular Component
cytoplasm  (ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:14691248   PMID:15345052   PMID:16381832   PMID:17604727   PMID:17805466   PMID:20223197   PMID:20403161   PMID:20805985   PMID:23946534   PMID:25858512   PMID:29614311   PMID:31599400  


Genomics

Comparative Map Data
Mir138-2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81910,680,133 - 10,680,214 (-)NCBIGRCr8
mRatBN7.21910,674,193 - 10,674,274 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1910,674,193 - 10,674,274 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1910,637,411 - 10,637,492 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01911,404,249 - 11,404,330 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01910,691,239 - 10,691,320 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01911,149,748 - 11,149,829 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1911,149,748 - 11,149,829 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01911,127,479 - 11,127,560 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Cytogenetic Map19p12NCBI
MIR138-2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381656,858,518 - 56,858,601 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1656,858,518 - 56,858,601 (+)EnsemblGRCh38hg38GRCh38
GRCh371656,892,430 - 56,892,513 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361655,449,930 - 55,450,013 (+)NCBINCBI36Build 36hg18NCBI36
Celera1641,391,689 - 41,391,772 (+)NCBICelera
Cytogenetic Map16q13NCBI
HuRef1642,761,914 - 42,761,997 (+)NCBIHuRef
CHM1_11658,300,452 - 58,300,535 (+)NCBICHM1_1
T2T-CHM13v2.01662,654,837 - 62,654,920 (+)NCBIT2T-CHM13v2.0
Mir138-2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39895,050,939 - 95,051,009 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl895,050,939 - 95,051,009 (+)EnsemblGRCm39 Ensembl
GRCm38894,324,311 - 94,324,381 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl894,324,311 - 94,324,381 (+)EnsemblGRCm38mm10GRCm38
MGSCv37896,848,211 - 96,848,281 (+)NCBIGRCm37MGSCv37mm9NCBIm37
Celera898,656,033 - 98,656,103 (+)NCBICelera
Cytogenetic Map8C5NCBI
cM Map846.46NCBI
MIR138B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1259,454,083 - 59,454,151 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl259,454,083 - 59,454,151 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha256,082,903 - 56,082,971 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0259,993,298 - 59,993,366 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl259,993,292 - 59,993,374 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1256,824,332 - 56,824,400 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0257,831,423 - 57,831,491 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0258,725,891 - 58,725,959 (-)NCBIUU_Cfam_GSD_1.0

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Vimrno-miR-138-5pMirtarbaseexternal_infoMicroarrayFunctional MTI (Weak)18258830
Lypla1rno-miR-138-5pMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blotFunctional MTI20064393

Predicted Targets
Summary Value
Count of predictions:5031
Count of gene targets:3469
Count of transcripts:3684
Interacting mature miRNAs:rno-miR-138-2-3p, rno-miR-138-5p
Prediction methods:Microtar, Miranda, Pita, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7411590Foco7Food consumption QTL 76.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)19124688055Rat
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127355345Rat
631678Cm9Cardiac mass QTL 94.270.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)19128982497Rat
631681Cm12Cardiac mass QTL 123.330.00053heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)19128982497Rat
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19131963836Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19136824771Rat
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19136824771Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19136824771Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19136824771Rat
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)1956937445569374Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)1956937445569374Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19218792746708701Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19231612147316121Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19320477748204777Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19745724942983518Rat
724565Tcas5Tongue tumor susceptibility QTL 510.04tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)19997775339654489Rat
631840Niddm38Non-insulin dependent diabetes mellitus QTL 383.86blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)191032318023069265Rat


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 circulatory system endocrine system hemolymphoid system nervous system renal system reproductive system
High
Medium 39
Low 1 2 4 27 2 14
Below cutoff 2 1 6

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_031884 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000019 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000053766
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1910,674,193 - 10,674,274 (-)Ensembl
Rnor_6.0 Ensembl1911,149,748 - 11,149,829 (-)Ensembl
RefSeq Acc Id: NR_031884
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81910,680,133 - 10,680,214 (-)NCBI
mRatBN7.21910,674,193 - 10,674,274 (-)NCBI
Rnor_6.01911,149,748 - 11,149,829 (-)NCBI
Rnor_5.01911,127,479 - 11,127,560 (-)NCBI
Sequence:
Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2325569 AgrOrtholog
BioCyc Gene G2FUF-6479 BioCyc
Ensembl Genes ENSRNOG00000035643 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000053766 ENTREZGENE
miRBase MI0000911 ENTREZGENE
NCBI Gene 100314032 ENTREZGENE
PhenoGen Mir138-2 PhenoGen
RatGTEx ENSRNOG00000035643 RatGTEx
RNAcentral URS000040780F RNACentral
  URS0000430FD2 RNACentral
  URS000075C8C2 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-14 Mir138-2  microRNA 138-2  Mir138-2  microRNA mir-138-2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-06-02 Mir138-2  microRNA mir-138-2      Symbol and Name status set to provisional 70820 PROVISIONAL