Mir29b1 (microRNA 29b-1) - Rat Genome Database

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Gene: Mir29b1 (microRNA 29b-1) Rattus norvegicus
Analyze
Symbol: Mir29b1
Name: microRNA 29b-1
RGD ID: 2325591
Description: Predicted to enable lncRNA binding activity; mRNA 3'-UTR binding activity; and mRNA base-pairing translational repressor activity. Involved in several processes, including neuron apoptotic process; positive regulation of nitric oxide biosynthetic process; and vasodilation. Predicted to be located in cytoplasm; extracellular exosome; and nucleus. Used to study middle cerebral artery infarction. Human ortholog(s) of this gene implicated in lung non-small cell carcinoma. Orthologous to human MIR29B1 (microRNA 29b-1); PARTICIPATES IN Parkinson's disease pathway; INTERACTS WITH arsenite(3-); cadmium atom; cadmium dichloride.
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: microRNA mir-29b-1; Mir29b-1; rno-mir-29b-1
RGD Orthologs
Human
Mouse
Dog
Pig
Alliance Orthologs
More Info more info ...
Allele / Splice: Mir29b1em1Mcwi  
Genetic Models: SS-Chr 13BN-Mir29bem1Mcwi
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8460,618,334 - 60,618,414 (-)NCBIGRCr8
mRatBN7.2459,650,987 - 59,651,067 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl459,650,986 - 59,651,067 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx464,621,480 - 64,621,560 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0460,537,661 - 60,537,741 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0458,939,603 - 58,939,683 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0458,344,310 - 58,344,390 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl458,344,310 - 58,344,390 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0458,100,053 - 58,100,133 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera454,744,609 - 54,744,689 (-)NCBICelera
Cytogenetic Map4q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
cellular hyperosmotic salinity response  (ISO)
cellular response to leukemia inhibitory factor  (ISO)
cellular response to lipopolysaccharide  (ISO)
epigenetic regulation of gene expression  (ISO)
long-term synaptic potentiation  (ISO)
miRNA-mediated gene silencing by inhibition of translation  (ISO)
miRNA-mediated gene silencing by mRNA destabilization  (ISO)
miRNA-mediated post-transcriptional gene silencing  (ISO)
negative regulation of amyloid precursor protein catabolic process  (ISO)
negative regulation of amyloid-beta formation  (ISO)
negative regulation of canonical Wnt signaling pathway  (ISO)
negative regulation of cell migration  (ISO)
negative regulation of cell population proliferation  (ISO)
negative regulation of cellular response to transforming growth factor beta stimulus  (ISO)
negative regulation of circulating fibrinogen levels  (ISO)
negative regulation of collagen biosynthetic process  (ISO)
negative regulation of cytokine-mediated signaling pathway  (ISO)
negative regulation of epithelial to mesenchymal transition  (ISO)
negative regulation of G1/S transition of mitotic cell cycle  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of interleukin-32 production  (ISO)
negative regulation of mesenchymal stem cell proliferation  (ISO)
negative regulation of non-canonical NF-kappaB signal transduction  (ISO)
negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway  (ISO)
negative regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction  (ISO)
negative regulation of potassium ion transmembrane transport  (ISO)
negative regulation of Rac protein signal transduction  (ISO)
negative regulation of transforming growth factor beta receptor signaling pathway  (ISO)
negative regulation of type III interferon production  (ISO)
neuron apoptotic process  (IMP)
positive regulation of apoptotic process  (ISO)
positive regulation of cell migration  (ISO)
positive regulation of fat cell differentiation  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of mitochondrial membrane permeability involved in apoptotic process  (ISO)
positive regulation of nitric oxide biosynthetic process  (IMP)
regulation of epithelium regeneration  (ISO)
regulation of membrane repolarization  (ISO)
regulation of systemic arterial blood pressure  (IMP)
sensory perception of sound  (ISO)
tissue remodeling  (ISO)
vasodilation  (IMP)
Wnt signaling pathway  (ISO)

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Assessment of Cell-Free Long Non-Coding RNA-H19 and miRNA-29a, miRNA-29b Expression and Severity of Diabetes. Alfaifi M, etal., Diabetes Metab Syndr Obes. 2020 Oct 14;13:3727-3737. doi: 10.2147/DMSO.S273586. eCollection 2020.
2. LncRNA H19 Drives Proliferation of Cardiac Fibroblasts and Collagen Production via Suppression of the miR-29a-3p/miR-29b-3p-VEGFA/TGF-β Axis. Guo F, etal., Mol Cells. 2022 Mar 31;45(3):122-133. doi: 10.14348/molcells.2021.0066.
3. Long non-coding RNA H19 promotes leukocyte inflammation in ischemic stroke by targeting the miR-29b/C1QTNF6 axis. Li G, etal., CNS Neurosci Ther. 2022 Jun;28(6):953-963. doi: 10.1111/cns.13829. Epub 2022 Mar 24.
4. Convergence of miRNA expression profiling, alpha-synuclein interacton and GWAS in Parkinson's disease. Martins M, etal., PLoS One. 2011;6(10):e25443. doi: 10.1371/journal.pone.0025443. Epub 2011 Oct 7.
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. miR-29 contributes to normal endothelial function and can restore it in cardiometabolic disorders. Widlansky ME, etal., EMBO Mol Med. 2018 Mar;10(3). pii: emmm.201708046. doi: 10.15252/emmm.201708046.
7. Therapeutic Delivery of MicroRNA-29b by Cationic Lipoplexes for Lung Cancer. Wu Y, etal., Mol Ther Nucleic Acids. 2013 Apr 16;2:e84. doi: 10.1038/mtna.2013.14.
Additional References at PubMed
PMID:15345052   PMID:16381832   PMID:16682203   PMID:16766679   PMID:17028171   PMID:17604727   PMID:17805466   PMID:18723672   PMID:18762567   PMID:20403161   PMID:20439489   PMID:21522133  
PMID:22094713   PMID:23646144   PMID:23990893   PMID:24103556   PMID:24650661   PMID:24819309   PMID:25389122   PMID:25636075   PMID:25788572   PMID:25858512   PMID:26187577   PMID:26738448  
PMID:27125250   PMID:28061433   PMID:28541289   PMID:28609022   PMID:30025410   PMID:30120082   PMID:30964155   PMID:31799683   PMID:32165827   PMID:33175349   PMID:33225366   PMID:34874512  
PMID:35322290   PMID:35699870   PMID:36052307   PMID:38934067  


Genomics

Comparative Map Data
Mir29b1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8460,618,334 - 60,618,414 (-)NCBIGRCr8
mRatBN7.2459,650,987 - 59,651,067 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl459,650,986 - 59,651,067 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx464,621,480 - 64,621,560 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0460,537,661 - 60,537,741 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0458,939,603 - 58,939,683 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0458,344,310 - 58,344,390 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl458,344,310 - 58,344,390 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0458,100,053 - 58,100,133 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera454,744,609 - 54,744,689 (-)NCBICelera
Cytogenetic Map4q22NCBI
MIR29B1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387130,877,459 - 130,877,539 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7130,877,459 - 130,877,539 (-)EnsemblGRCh38hg38GRCh38
GRCh377130,562,218 - 130,562,298 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 367130,212,757 - 130,212,837 (-)NCBINCBI36Build 36hg18NCBI36
Celera7125,313,299 - 125,313,379 (-)NCBICelera
Cytogenetic Map7q32.3NCBI
HuRef7124,877,710 - 124,877,790 (-)NCBIHuRef
CHM1_17130,495,874 - 130,495,954 (-)NCBICHM1_1
T2T-CHM13v2.07132,194,951 - 132,195,031 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v27129,901,926 - 129,902,006 (-)NCBI
Mir29b-1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39631,039,958 - 31,040,028 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl631,039,958 - 31,040,028 (-)EnsemblGRCm39 Ensembl
GRCm38631,063,023 - 31,063,093 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl631,063,023 - 31,063,093 (-)EnsemblGRCm38mm10GRCm38
MGSCv37631,013,023 - 31,013,093 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera631,048,786 - 31,048,856 (-)NCBICelera
Cytogenetic Map6A3.3NCBI
cM Map612.55NCBI
MIR29B-1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1146,184,457 - 6,184,521 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl146,184,446 - 6,184,531 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha145,844,727 - 5,844,791 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0145,918,648 - 5,918,712 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1146,124,203 - 6,124,267 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0145,869,469 - 5,869,533 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0146,012,658 - 6,012,722 (+)NCBIUU_Cfam_GSD_1.0
MIR29B-1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1818,039,629 - 18,039,709 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11818,039,629 - 18,039,709 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21819,034,822 - 19,034,902 (+)NCBISscrofa10.2Sscrofa10.2susScr3

miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:4663
Count of gene targets:3499
Count of transcripts:3739
Interacting mature miRNAs:rno-miR-29b-1-5p
Prediction methods:Microtar, Miranda, Pita, Pita,Targetscan, 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
2303585Bw86Body weight QTL 864body mass (VT:0001259)body weight (CMO:0000012)41467806559678065Rat
5685012Bmd87Bone mineral density QTL 875.1tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)45664777678882945Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)438465774146803430Rat
61445Strs3Sensitivity to stroke QTL 33cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)44043338885433388Rat
6893678Bw108Body weight QTL 1082.60.006body mass (VT:0001259)body weight (CMO:0000012)44345797688457976Rat
5685009Bmd86Bone mineral density QTL 863.7tibia mineral mass (VT:1000283)bone mineral density (CMO:0001226)45664777678882945Rat
1331807Rf31Renal function QTL 312.988urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)43952426474726312Rat
8552782Vie1Viral induced encephalitis QTL 126.4brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43443048482490359Rat
634311Sach7Saccharin preference QTL 7taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)45711443281266970Rat
1358363Sradr3Stress Responsive Adrenal Weight QTL 36.19adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)457486946102486946Rat
631261Tcas3Tongue tumor susceptibility QTL 36.88tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)41081417091360527Rat
2312567Glom19Glomerulus QTL 191.90.006kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)445456990146803430Rat
61336Bp21Blood pressure QTL 214.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45711470578881294Rat
2313401Anxrr27Anxiety related response QTL 27aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)41793350862933508Rat
8655961Kidm43Kidney mass QTL 4318kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)436303261103194984Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)444463908148090542Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)42690728575585128Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45214602146446691Rat
8552801Bw143Body weight QTL 1437.3body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)43443048482490359Rat
61475Aia2Adjuvant induced arthritis QTL 25.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)43950527573892441Rat
8694439Bw168Body weight QTL 1689.570.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)44043341485433414Rat
61412Pia2Pristane induced arthritis QTL 23.9joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)42133334362278020Rat
8655906Rf60Renal function QTL 603.8blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)42949419581006281Rat
619616Bp79Blood pressure QTL 790.0292arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4521460278882945Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)444463720155883716Rat
6909122Insul22Insulin level QTL 224.63blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)42690728575585128Rat
8552809Vie5Viral induced encephalitis QTL 525.3brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43443048482490359Rat
1558651Swd3Spike wave discharge measurement QTL 34.620.000024brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)45843213392991462Rat
1358203Stl19Serum triglyceride level QTL 192.80.002blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)4521829465958103Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)444463908148090542Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)456698790126192555Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)450119848146803430Rat
631546Bp86Blood pressure QTL 863.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45711443291360801Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)439524264116179656Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)456647873149491524Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)432583980114627242Rat
4889969Bss96Bone structure and strength QTL 964.9tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)45664777678882945Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
4889972Bss97Bone structure and strength QTL 975.6tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)45664777678882945Rat
631671Iddm11Insulin dependent diabetes mellitus QTL 113.60.0012blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)45863587778886137Rat


Genetic Models
This gene Mir29b1 is modified in the following models/strains:
SS-Chr 13BN-Mir29bem1Mcwi    


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 respiratory system appendage
High
Medium
Low 4 4 4 4 2 2 5 4 4
Below cutoff 1 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_031837 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000053586
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl459,650,986 - 59,651,067 (-)Ensembl
Rnor_6.0 Ensembl458,344,310 - 58,344,390 (-)Ensembl
RefSeq Acc Id: NR_031837
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8460,618,334 - 60,618,414 (-)NCBI
mRatBN7.2459,650,987 - 59,651,067 (-)NCBI
Rnor_6.0458,344,310 - 58,344,390 (-)NCBI
Rnor_5.0458,100,053 - 58,100,133 (-)NCBI
Celera454,744,609 - 54,744,689 (-)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:2325591 AgrOrtholog
BioCyc Gene G2FUF-45317 BioCyc
Ensembl Genes ENSRNOG00000035463 Ensembl
miRBase MI0000864 ENTREZGENE
NCBI Gene 100314008 ENTREZGENE
PhenoGen Mir29b1 PhenoGen
RatGTEx ENSRNOG00000035463 RatGTEx
RNAcentral URS000024463E RNACentral
  URS0000759FD8 RNACentral
  URS000075E5B6 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-14 Mir29b1  microRNA 29b-1  Mir29b-1  microRNA mir-29b-1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-06-02 Mir29b-1  microRNA mir-29b-1      Symbol and Name status set to provisional 70820 PROVISIONAL