Mir20b (microRNA 20b) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Mir20b (microRNA 20b) Rattus norvegicus
Analyze
Symbol: Mir20b
Name: microRNA 20b
RGD ID: 2325420
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 gene expression; negative regulation of vascular endothelial cell proliferation; and positive regulation of cellular senescence. Predicted to act upstream of or within several processes, including cellular response to forskolin; cellular response to leukemia inhibitory factor; and negative regulation of B cell apoptotic process. Predicted to be located in extracellular exosome. Predicted to be part of RISC complex. Orthologous to human MIR20B (microRNA 20b); INTERACTS WITH atrazine; bleomycin A2; cisplatin.
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: microRNA mir-20b; rno-mir-20b
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
GRCr8X137,343,197 - 137,343,268 (-)NCBIGRCr8
mRatBN7.2X132,422,211 - 132,422,282 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX132,422,211 - 132,422,282 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX134,584,619 - 134,584,690 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X138,166,560 - 138,166,631 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X135,732,264 - 135,732,335 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X140,117,518 - 140,117,589 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX140,117,518 - 140,117,589 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X140,167,365 - 140,167,436 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX131,322,426 - 131,322,497 (-)NCBICelera
Cytogenetic MapXq36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

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:16274478   PMID:16381832   PMID:17604727   PMID:18320040   PMID:18329372   PMID:19147652   PMID:20403161   PMID:20439489   PMID:21993888   PMID:22050707   PMID:23646144   PMID:24205035  
PMID:29786750   PMID:30628668   PMID:31210286   PMID:31636010   PMID:32150340   PMID:32383354   PMID:32510153   PMID:33347533   PMID:34402705   PMID:34985721   PMID:38001489   PMID:38540789  


Genomics

Comparative Map Data
Mir20b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X137,343,197 - 137,343,268 (-)NCBIGRCr8
mRatBN7.2X132,422,211 - 132,422,282 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX132,422,211 - 132,422,282 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX134,584,619 - 134,584,690 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X138,166,560 - 138,166,631 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X135,732,264 - 135,732,335 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X140,117,518 - 140,117,589 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX140,117,518 - 140,117,589 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X140,167,365 - 140,167,436 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX131,322,426 - 131,322,497 (-)NCBICelera
Cytogenetic MapXq36NCBI
MIR20B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X134,169,809 - 134,169,877 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX134,169,809 - 134,169,877 (-)EnsemblGRCh38hg38GRCh38
GRCh37X133,303,839 - 133,303,907 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X133,131,504 - 133,131,572 (-)NCBINCBI36Build 36hg18NCBI36
CeleraX133,690,672 - 133,690,740 (-)NCBICelera
Cytogenetic MapXq26.2NCBI
HuRefX122,701,878 - 122,701,946 (-)NCBIHuRef
CHM1_1X133,215,535 - 133,215,603 (-)NCBICHM1_1
T2T-CHM13v2.0X132,494,956 - 132,495,024 (-)NCBIT2T-CHM13v2.0
Mir20b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X51,830,990 - 51,831,069 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX51,830,990 - 51,831,069 (-)EnsemblGRCm39 Ensembl
GRCm38X52,742,113 - 52,742,192 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX52,742,113 - 52,742,192 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X50,095,290 - 50,095,369 (-)NCBIGRCm37MGSCv37mm9NCBIm37
CeleraX40,158,333 - 40,158,412 (-)NCBICelera
Cytogenetic MapXA5NCBI
cM MapX29.15NCBI
MIR20B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X104,896,091 - 104,896,158 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX104,896,091 - 104,896,158 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX91,006,450 - 91,006,517 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X106,755,847 - 106,755,914 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX106,755,847 - 106,755,914 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X104,169,023 - 104,169,090 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X106,034,968 - 106,035,035 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X105,820,234 - 105,820,301 (-)NCBIUU_Cfam_GSD_1.0
MIR20B-1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX110,113,980 - 110,114,059 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X110,113,980 - 110,114,059 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X126,199,775 - 126,199,854 (-)NCBISscrofa10.2Sscrofa10.2susScr3

miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:12952
Count of gene targets:6940
Count of transcripts:7550
Interacting mature miRNAs:rno-miR-20b-3p, rno-miR-20b-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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X93956491138956491Rat
1598856Memor1Memory QTL 11.9exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)X103312877148312877Rat
1598809Memor15Memory QTL 154.4exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X103312877148312877Rat
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX100567703150256146Rat
634346Insul4Insulin level QTL 40blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)X126975089152453651Rat
738029Stresp2Stress response QTL 23.40.0004stress-related behavior trait (VT:0010451)defensive burying - approachX112934952138400867Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X113937816152453651Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat


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

endocrine system hemolymphoid system integumental system musculoskeletal system nervous system renal system reproductive system appendage
High
Medium
Low 6 12 1 1 2 3 5 1
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_032137 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000054662
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX132,422,211 - 132,422,282 (-)Ensembl
Rnor_6.0 EnsemblX140,117,518 - 140,117,589 (-)Ensembl
RefSeq Acc Id: NR_032137
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X137,343,197 - 137,343,268 (-)NCBI
mRatBN7.2X132,422,211 - 132,422,282 (-)NCBI
Rnor_6.0X140,117,518 - 140,117,589 (-)NCBI
Rnor_5.0X140,167,365 - 140,167,436 (-)NCBI
CeleraX131,322,426 - 131,322,497 (-)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:2325420 AgrOrtholog
BioCyc Gene G2FUF-1016 BioCyc
Ensembl Genes ENSRNOG00000036558 Ensembl
miRBase MI0003554 ENTREZGENE
NCBI Gene 100314201 ENTREZGENE
PhenoGen Mir20b PhenoGen
RatGTEx ENSRNOG00000036558 RatGTEx
RNAcentral URS00002B3783 RNACentral
  URS000075A72A RNACentral
  URS000075E1AA RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-14 Mir20b  microRNA 20b  Mir20b  microRNA mir-20b  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-06-02 Mir20b  microRNA mir-20b      Symbol and Name status set to provisional 70820 PROVISIONAL