Mir200b (microRNA 200b) - Rat Genome Database

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Gene: Mir200b (microRNA 200b) Rattus norvegicus
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Symbol: Mir200b
Name: microRNA 200b
RGD ID: 2325552
Description: Predicted to enable mRNA 3'-UTR binding activity and mRNA base-pairing translational repressor activity. Predicted to be involved in several processes, including miRNA-mediated post-transcriptional gene silencing; negative regulation of angiogenesis; and negative regulation of toll-like receptor 4 signaling pathway. Predicted to act upstream of or within several processes, including cellular response to leukemia inhibitory factor; miRNA-mediated post-transcriptional gene silencing; and neuron differentiation. Human ortholog(s) of this gene implicated in hepatocellular carcinoma. Orthologous to human MIR200B (microRNA 200b); INTERACTS WITH 2-acetamidofluorene; aflatoxin B1; benzophenone.
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: microRNA mir-200b; rno-mir-200b
RGD Orthologs
Human
Mouse
Dog
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85171,931,495 - 171,931,589 (-)NCBIGRCr8
mRatBN7.25166,649,272 - 166,649,366 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5166,649,272 - 166,649,366 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5169,352,812 - 169,352,906 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05171,174,234 - 171,174,328 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05171,136,768 - 171,136,862 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05173,490,144 - 173,490,238 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5173,490,144 - 173,490,238 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05176,964,166 - 176,964,260 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera5164,850,075 - 164,850,169 (-)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Circulating Plasma Levels of MicroRNA-21 and MicroRNA-221 Are Potential Diagnostic Markers for Primary Intrahepatic Cholangiocarcinoma. Correa-Gallego C, etal., PLoS One. 2016 Sep 29;11(9):e0163699. doi: 10.1371/journal.pone.0163699. eCollection 2016.
2. Difference in expression of hepatic microRNAs miR-29c, miR-34a, miR-155, and miR-200b is associated with strain-specific susceptibility to dietary nonalcoholic steatohepatitis in mice. Pogribny IP, etal., Lab Invest. 2010 Oct;90(10):1437-46. doi: 10.1038/labinvest.2010.113. Epub 2010 Jun 14.
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. MVP-mediated exosomal sorting of miR-193a promotes colon cancer progression. Teng Y, etal., Nat Commun. 2017 Feb 17;8:14448. doi: 10.1038/ncomms14448.
5. Plasma microRNAs are sensitive indicators of inter-strain differences in the severity of liver injury induced in mice by a choline- and folate-deficient diet. Tryndyak VP, etal., Toxicol Appl Pharmacol. 2012 Jul 1;262(1):52-9. doi: 10.1016/j.taap.2012.04.018. Epub 2012 Apr 24.
6. The miR-200b-ZEB1 circuit regulates diverse stemness of human hepatocellular carcinoma. Tsai SC, etal., Mol Carcinog. 2017 Sep;56(9):2035-2047. doi: 10.1002/mc.22657. Epub 2017 Apr 18.
7. miR-193a-3p is a potential tumor suppressor in malignant pleural mesothelioma. Williams M, etal., Oncotarget. 2015 Sep 15;6(27):23480-95.
8. Prolonged darkness reduces liver fibrosis in a mouse model of primary sclerosing cholangitis by miR-200b down-regulation. Wu N, etal., FASEB J. 2017 Oct;31(10):4305-4324. doi: 10.1096/fj.201700097R. Epub 2017 Jun 20.
9. Methylation-associated silencing of miR-200b facilitates human hepatocellular carcinoma progression by directly targeting BMI1. Wu WR, etal., Oncotarget. 2016 Apr 5;7(14):18684-93. doi: 10.18632/oncotarget.7629.
10. Correlation analysis of miR-200b, miR-200c, and miR-141 with liver metastases in colorectal cancer patients. Zhu SH, etal., Eur Rev Med Pharmacol Sci. 2017 May;21(10):2357-2363.
Additional References at PubMed
PMID:16381832   PMID:16682203   PMID:16766679   PMID:20403161   PMID:20439489   PMID:21415270   PMID:22907787   PMID:23012479   PMID:23646144   PMID:24749688   PMID:25391656   PMID:25937343  
PMID:28122882   PMID:29150958   PMID:29786779   PMID:30506990   PMID:30890428   PMID:31964527   PMID:32004541   PMID:32587254   PMID:36561887   PMID:37171465   PMID:37565555   PMID:38686051  


Genomics

Comparative Map Data
Mir200b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85171,931,495 - 171,931,589 (-)NCBIGRCr8
mRatBN7.25166,649,272 - 166,649,366 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5166,649,272 - 166,649,366 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5169,352,812 - 169,352,906 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05171,174,234 - 171,174,328 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05171,136,768 - 171,136,862 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05173,490,144 - 173,490,238 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5173,490,144 - 173,490,238 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05176,964,166 - 176,964,260 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera5164,850,075 - 164,850,169 (-)NCBICelera
Cytogenetic Map5q36NCBI
MIR200B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811,167,104 - 1,167,198 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11,167,104 - 1,167,198 (+)EnsemblGRCh38hg38GRCh38
GRCh3711,102,484 - 1,102,578 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3611,092,346 - 1,092,440 (+)NCBINCBI36Build 36hg18NCBI36
Celera11,480,246 - 1,480,340 (-)NCBICelera
Cytogenetic Map1p36.33NCBI
HuRef1373,865 - 373,959 (+)NCBIHuRef
CHM1_111,089,454 - 1,089,548 (+)NCBICHM1_1
T2T-CHM13v2.01595,701 - 595,795 (+)NCBIT2T-CHM13v2.0
Mir200b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394156,140,138 - 156,140,207 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4156,140,138 - 156,140,207 (-)EnsemblGRCm39 Ensembl
GRCm384156,055,681 - 156,055,750 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4156,055,681 - 156,055,750 (-)EnsemblGRCm38mm10GRCm38
MGSCv374155,429,790 - 155,429,859 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera4158,318,077 - 158,318,146 (-)NCBICelera
Cytogenetic Map4E2NCBI
cM Map487.96NCBI
MIR200B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1556,368,400 - 56,368,479 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl556,368,400 - 56,368,479 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha556,445,394 - 56,445,473 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0556,571,297 - 56,571,376 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl556,571,297 - 56,571,376 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1556,562,064 - 56,562,143 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0556,454,322 - 56,454,401 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0556,844,315 - 56,844,394 (+)NCBIUU_Cfam_GSD_1.0

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Zeb2rno-miR-200b-3pMirtarbaseexternal_infoWestern blotFunctional MTI19167416
Zeb2rno-miR-200b-3pMirtarbaseexternal_infoWestern blotFunctional MTI18942116

Predicted Targets
Summary Value
Count of predictions:6240
Count of gene targets:4054
Count of transcripts:4311
Interacting mature miRNAs:rno-miR-200b-3p, rno-miR-200b-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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat
631272Lanf1Left ventricular atrial natriuretic factor QTL 112heart left ventricle natriuretic peptide A amount (VT:0010596)heart left ventricle natriuretic peptide A level (CMO:0002165)5151113452166875058Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5128924607166875058Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5126424772166875058Rat
1549904Neuinf1Neuroinflammation QTL 130nervous system integrity trait (VT:0010566)blood T lymphocyte count (CMO:0000110)5154828214166875058Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5130130159166875058Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5128506074166875058Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5131345754166875058Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)582394392166664054Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5127798274166875058Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5121846814166846814Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5127798274166875058Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5128506074166875058Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5143069996166846814Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
2 1 3 6 13 1 4 1 2 16 5 1 8 20 12

Sequence


Ensembl Acc Id: ENSRNOT00000053631
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5166,649,272 - 166,649,366 (-)Ensembl
Rnor_6.0 Ensembl5173,490,144 - 173,490,238 (-)Ensembl
RefSeq Acc Id: NR_031917
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85171,931,495 - 171,931,589 (-)NCBI
mRatBN7.25166,649,272 - 166,649,366 (-)NCBI
Rnor_6.05173,490,144 - 173,490,238 (-)NCBI
Rnor_5.05176,964,166 - 176,964,260 (-)NCBI
Celera5164,850,075 - 164,850,169 (-)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:2325552 AgrOrtholog
BioCyc Gene G2FUF-38864 BioCyc
Ensembl Genes ENSRNOG00000035508 Ensembl
miRBase MI0000944 ENTREZGENE
NCBI Gene 100314050 ENTREZGENE
PhenoGen Mir200b PhenoGen
RatGTEx ENSRNOG00000035508 RatGTEx
RNAcentral URS000012A1DD RNACentral
  URS00002B452B RNACentral
  URS000075B88C RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-14 Mir200b  microRNA 200b  Mir200b  microRNA mir-200b  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-06-02 Mir200b  microRNA mir-200b      Symbol and Name status set to provisional 70820 PROVISIONAL