Mir140 (microRNA 140) - Rat Genome Database

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Pathways
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Gene: Mir140 (microRNA 140) Rattus norvegicus
Analyze
Symbol: Mir140
Name: microRNA 140
RGD ID: 2325351
Description: Enables MAP kinase kinase activity. Involved in several processes, including negative regulation of cytokine production; negative regulation of reactive oxygen species biosynthetic process; and negative regulation of toll-like receptor signaling pathway. Predicted to be part of RISC complex. Biomarker of middle cerebral artery infarction. Human ortholog(s) of this gene implicated in spondyloepiphyseal dysplasia Nishimura type and thoracic aortic aneurysm. Orthologous to human MIR140 (microRNA 140); INTERACTS WITH aflatoxin B1; atrazine; bisphenol A.
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: rno-mir-140
RGD Orthologs
Human
Mouse
Dog
Pig
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81952,375,293 - 52,375,391 (+)NCBIGRCr8
mRatBN7.21935,465,577 - 35,465,675 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1935,465,577 - 35,465,675 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1942,281,002 - 42,281,100 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01942,934,362 - 42,934,460 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01945,239,004 - 45,239,102 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01939,608,951 - 39,609,049 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1939,608,951 - 39,609,049 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01950,471,253 - 50,471,351 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1934,887,662 - 34,887,760 (+)NCBICelera
Cytogenetic Map19q12NCBI
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
cartilage development  (ISO)
cellular response to amyloid-beta  (ISO)
cellular response to hypoxia  (IEP,ISO)
cellular response to lipopolysaccharide  (ISO)
miRNA-mediated gene silencing by mRNA destabilization  (ISO)
miRNA-mediated post-transcriptional gene silencing  (ISO)
myelination  (ISO)
negative regulation of chemokine production  (ISO)
negative regulation of cytokine production involved in inflammatory response  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of interleukin-1 beta production  (IMP)
negative regulation of interleukin-6 production  (IMP,ISO)
negative regulation of osteoblast differentiation  (ISO)
negative regulation of reactive oxygen species biosynthetic process  (IMP)
negative regulation of SMAD protein signal transduction  (ISO)
negative regulation of toll-like receptor 4 signaling pathway  (ISO)
negative regulation of toll-like receptor signaling pathway  (IMP)
negative regulation of transforming growth factor beta receptor signaling pathway  (ISO)
negative regulation of tumor necrosis factor production  (IMP,ISO)
negative regulation of vascular associated smooth muscle cell migration  (ISO)
negative regulation of vascular associated smooth muscle cell proliferation  (ISO)
negative regulation of vascular endothelial growth factor production  (ISO)
ossification  (ISO)
positive regulation of BMP signaling pathway  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of vascular associated smooth muscle cell apoptotic process  (ISO)
positive regulation of vascular associated smooth muscle cell differentiation involved in phenotypic switching  (ISO)
regulation of gene expression  (ISO)
response to bacterium  (ISO)
response to oxygen levels  (ISO)
sensory perception of sound  (ISO)
skeletal system development  (ISO)
tissue homeostasis  (ISO)

Cellular Component
RISC complex  (ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. MicroRNA-140-5p exacerbates vascular cognitive impairment by inhibiting neurogenesis in the adult mouse hippocampus after global cerebral ischemia. Liang HB, etal., Brain Res Bull. 2022 Jun 1;183:73-83. doi: 10.1016/j.brainresbull.2022.03.001. Epub 2022 Mar 4.
2. LncRNA SNHG1 alleviates hypoxia-reoxygenation-induced vascular endothelial cell injury as a competing endogenous RNA through the HIF-1α/VEGF signal pathway. Liang S, etal., Mol Cell Biochem. 2020 Feb;465(1-2):1-11. doi: 10.1007/s11010-019-03662-0. Epub 2019 Dec 2.
3. MicroRNA-140-5p aggravates hypertension and oxidative stress of atherosclerosis via targeting Nrf2 and Sirt2. Liu QQ, etal., Int J Mol Med. 2019 Feb;43(2):839-849. doi: 10.3892/ijmm.2018.3996. Epub 2018 Nov 26.
4. miR-140-5p regulates vascular smooth muscle cell viability, migration and apoptosis by targeting ROBO4 gene expression in atherosclerosis. Luo Y, etal., Mol Med Rep. 2021 Mar;23(3):213. doi: 10.3892/mmr.2021.11852. Epub 2021 Jan 26.
5. MicroRNA-410 serves as a candidate biomarker in hypoxic-ischemic encephalopathy newborns and provides neuroprotection in oxygen-glucose deprivation-injured PC12 and SH-SY5Y cells. Meng Q, etal., Brain Behav. 2021 Aug;11(8):e2293. doi: 10.1002/brb3.2293. Epub 2021 Jul 31.
6. MicroRNAs in ascending thoracic aortic aneurysms. Moushi A, etal., Biosci Rep. 2020 Jul 31;40(7):BSR20200218. doi: 10.1042/BSR20200218.
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. MicroRNA-140-5p and SMURF1 regulate pulmonary arterial hypertension. Rothman AM, etal., J Clin Invest. 2016 Jul 1;126(7):2495-508. doi: 10.1172/JCI83361. Epub 2016 May 23.
9. Neuroprotective effects of microRNA-140-5p on ischemic stroke in mice via regulation of the TLR4/NF-κB axis. Song W, etal., Brain Res Bull. 2021 Mar;168:8-16. doi: 10.1016/j.brainresbull.2020.10.020. Epub 2020 Nov 24.
10. miR‑140‑5p regulates angiogenesis following ischemic stroke by targeting VEGFA. Sun J, etal., Mol Med Rep. 2016 May;13(5):4499-505. doi: 10.3892/mmr.2016.5066. Epub 2016 Mar 30.
11. LncRNA H19 inhibits ER stress induced apoptosis and improves diabetic cardiomyopathy by regulating PI3K/AKT/mTOR axis. Wang S, etal., Aging (Albany NY). 2022 Aug 30;14(16):6809-6828. doi: 10.18632/aging.204256. Epub 2022 Aug 30.
12. miR-140-5p Attenuates Neuroinflammation and Brain Injury in Rats Following Intracerebral Hemorrhage by Targeting TLR4. Wang S, etal., Inflammation. 2019 Oct;42(5):1869-1877. doi: 10.1007/s10753-019-01049-3.
13. Ellagic acid promotes ventricular remodeling after acute myocardial infarction by up-regulating miR-140-3p. Wei DZ, etal., Biomed Pharmacother. 2017 Nov;95:983-989. doi: 10.1016/j.biopha.2017.07.106. Epub 2017 Sep 12.
14. MiR-140a contributes to the pro-atherosclerotic phenotype of macrophages by downregulating interleukin-10. Yang HX, etal., Eur Rev Med Pharmacol Sci. 2020 Sep;24(17):9139-9146. doi: 10.26355/eurrev_202009_22861.
15. MicroRNA-140 attenuates myocardial ischemia-reperfusion injury through suppressing mitochondria-mediated apoptosis by targeting YES1. Yang S, etal., J Cell Biochem. 2019 Mar;120(3):3813-3821. doi: 10.1002/jcb.27663. Epub 2018 Sep 27.
16. KCNQ1OT1 Exacerbates Ischemia-Reperfusion Injury Through Targeted Inhibition of miR-140-3P. Yi M, etal., Inflammation. 2020 Oct;43(5):1832-1845. doi: 10.1007/s10753-020-01257-2.
17. Catalpol attenuates cardiomyocyte apoptosis in diabetic cardiomyopathy via Neat1/miR-140-5p/HDAC4 axis. Zou G, etal., Biochimie. 2019 Oct;165:90-99. doi: 10.1016/j.biochi.2019.05.005. Epub 2019 May 9.
Additional References at PubMed
PMID:14691248   PMID:15345052   PMID:16381832   PMID:16766679   PMID:17604727   PMID:18320040   PMID:18723672   PMID:18762567   PMID:20403161   PMID:20466812   PMID:20805985   PMID:22402365  
PMID:23185045   PMID:23646144   PMID:24205035   PMID:24349493   PMID:24615014   PMID:25751060   PMID:29304479   PMID:29536658   PMID:29760303   PMID:29864954   PMID:30367500   PMID:31176490  
PMID:31364103   PMID:31461554   PMID:32602122   PMID:32924718   PMID:33215446   PMID:33529652   PMID:33904383   PMID:34269482   PMID:34406574   PMID:34794910   PMID:35236339   PMID:36129637  
PMID:36336031   PMID:36527878   PMID:37171465   PMID:37584866  


Genomics

Comparative Map Data
Mir140
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81952,375,293 - 52,375,391 (+)NCBIGRCr8
mRatBN7.21935,465,577 - 35,465,675 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1935,465,577 - 35,465,675 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1942,281,002 - 42,281,100 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01942,934,362 - 42,934,460 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01945,239,004 - 45,239,102 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01939,608,951 - 39,609,049 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1939,608,951 - 39,609,049 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01950,471,253 - 50,471,351 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1934,887,662 - 34,887,760 (+)NCBICelera
Cytogenetic Map19q12NCBI
MIR140
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381669,933,081 - 69,933,180 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1669,933,081 - 69,933,180 (+)EnsemblGRCh38hg38GRCh38
GRCh371669,966,984 - 69,967,083 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361668,524,484 - 68,524,583 (+)NCBINCBI36Build 36hg18NCBI36
Celera1654,482,297 - 54,482,396 (+)NCBICelera
Cytogenetic Map16q22.1NCBI
HuRef1655,845,129 - 55,845,228 (+)NCBIHuRef
CHM1_11671,374,858 - 71,374,957 (+)NCBICHM1_1
T2T-CHM13v2.01675,735,661 - 75,735,760 (+)NCBIT2T-CHM13v2.0
Mir140
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398108,277,876 - 108,277,945 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8108,277,876 - 108,277,945 (+)EnsemblGRCm39 Ensembl
GRCm388107,551,244 - 107,551,313 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8107,551,244 - 107,551,313 (+)EnsemblGRCm38mm10GRCm38
MGSCv378110,075,144 - 110,075,213 (+)NCBIGRCm37MGSCv37mm9NCBIm37
Celera8111,782,593 - 111,782,662 (+)NCBICelera
Cytogenetic Map8D3NCBI
cM Map854.33NCBI
MIR140
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1579,814,256 - 79,814,316 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl579,814,246 - 79,814,326 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha579,803,222 - 79,803,282 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0580,244,523 - 80,244,583 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl580,244,513 - 80,244,593 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1580,072,654 - 80,072,714 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0579,761,757 - 79,761,817 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0580,394,432 - 80,394,492 (-)NCBIUU_Cfam_GSD_1.0
MIR140
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl617,077,507 - 17,077,620 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1617,077,530 - 17,077,599 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Dnm1rno-miR-140-3pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI18845019

Predicted Targets
Summary Value
Count of predictions:12895
Count of gene targets:7520
Count of transcripts:8104
Interacting mature miRNAs:rno-miR-140-3p, rno-miR-140-5p
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
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
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191082797043544039Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)191560502346559041Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
1549835Tcas7Tongue tumor susceptibility QTL 70.001tongue integrity trait (VT:0010553)squamous cell carcinoma of the head and neck tumor number (CMO:0001876)192481797839654489Rat
1354600Salc2Saline consumption QTL 29.910.001drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)192753020737947399Rat
1354607Gmadr1Adrenal mass QTL 15.83adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)192753020737947399Rat
1354633Bw28Body weight QTL 286.04body mass (VT:0001259)body weight (CMO:0000012)192753020737947399Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)193383821455283146Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat


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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium
Low 7 21 6 17 6 4 4 34 6 28 8 4
Below cutoff 2 11 5 4 1 4 2 9 3 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_031779 (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: ENSRNOT00000053732
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1935,465,577 - 35,465,675 (+)Ensembl
Rnor_6.0 Ensembl1939,608,951 - 39,609,049 (+)Ensembl
RefSeq Acc Id: NR_031779
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81952,375,293 - 52,375,391 (+)NCBI
mRatBN7.21935,465,577 - 35,465,675 (+)NCBI
Rnor_6.01939,608,951 - 39,609,049 (+)NCBI
Rnor_5.01950,471,253 - 50,471,351 (+)NCBI
Celera1934,887,662 - 34,887,760 (+)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:2325351 AgrOrtholog
BioCyc Gene G2FUF-5753 BioCyc
Ensembl Genes ENSRNOG00000035609 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000053732 ENTREZGENE
miRBase MI0000611 ENTREZGENE
NCBI Gene 100314276 ENTREZGENE
PhenoGen Mir140 PhenoGen
RatGTEx ENSRNOG00000035609 RatGTEx
RNAcentral URS00000821E0 RNACentral
  URS000026261D RNACentral
  URS000075ABC5 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-04-09 Mir140  microRNA 140  Mir140  microRNA mir-140  Name updated 61478 APPROVED
2010-06-02 Mir140  microRNA mir-140      Symbol and Name status set to provisional 70820 PROVISIONAL