Mir3588 (microRNA 3588) - Rat Genome Database

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Gene: Mir3588 (microRNA 3588) Rattus norvegicus
Analyze
Symbol: Mir3588
Name: microRNA 3588
RGD ID: 4888572
Description: INTERACTS WITH aldehydo-D-glucose; D-glucose; glucose
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: microRNA mir-3588; rno-mir-3588
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81129,732,563 - 29,732,668 (-)NCBIGRCr8
mRatBN7.21116,245,611 - 16,245,716 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1116,245,611 - 16,245,716 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1124,899,584 - 24,899,689 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01117,614,445 - 17,614,550 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01116,775,301 - 16,775,406 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01116,097,337 - 16,097,442 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1116,097,337 - 16,097,442 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01119,752,271 - 19,752,376 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1116,251,844 - 16,251,949 (-)NCBICelera
Cytogenetic Map11q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
aldehydo-D-glucose  (EXP)
D-glucose  (EXP)
glucose  (EXP)
nitrofen  (EXP)
Pirarubicin  (EXP)
rutin  (EXP)

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:16381832   PMID:20403161  


Genomics

miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:3527
Count of gene targets:2739
Count of transcripts:2940
Interacting mature miRNAs:rno-miR-3588
Prediction methods:Microtar, Miranda, Pita, Pita,Microtar, 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
634341Bw121Body weight QTL 1213.56abdominal fat pad mass (VT:1000711)abdominal fat pad weight (CMO:0000088)11121836709Rat
1598842Glom10Glomerulus QTL 103.4kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)11135331169Rat
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11843667453436674Rat
2290451Scl58Serum cholesterol level QTL 583.48blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)111283104625121472Rat


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

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 2 5
Low 10 19 7 11 7 8 9 8 8 2 8 8
Below cutoff 2 1 1 1 1 1 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_037386 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000011 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000053649
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1116,245,611 - 16,245,716 (-)Ensembl
Rnor_6.0 Ensembl1116,097,337 - 16,097,442 (-)Ensembl
RefSeq Acc Id: NR_037386
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81129,732,563 - 29,732,668 (-)NCBI
mRatBN7.21116,245,611 - 16,245,716 (-)NCBI
Rnor_6.01116,097,337 - 16,097,442 (-)NCBI
Rnor_5.01119,752,271 - 19,752,376 (-)NCBI
Celera1116,251,844 - 16,251,949 (-)NCBI
Sequence:
Transcriptome

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


Additional Information

Database Acc Id Source(s)
BioCyc Gene G2FUF-22154 BioCyc
Ensembl Genes ENSRNOG00000035526 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000053649 ENTREZGENE
miRBase MI0015466 ENTREZGENE
NCBI Gene 100526604 ENTREZGENE
PhenoGen Mir3588 PhenoGen
RatGTEx ENSRNOG00000035526 RatGTEx
RNAcentral URS000075B7C9 RNACentral
  URS000075EFF9 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-12-31 Mir3588  microRNA 3588  Mir3588  microRNA mir-3588  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-11-23 Mir3588  microRNA mir-3588      Symbol and Name status set to provisional 70820 PROVISIONAL