Mir3589 (microRNA 3589) - Rat Genome Database

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Gene: Mir3589 (microRNA 3589) Rattus norvegicus
Analyze
Symbol: Mir3589
Name: microRNA 3589
RGD ID: 4888571
Description: microRNAs (miRNAs) are short (20-24 nt) non-coding RNAs that are involved in post-transcriptional regulation of gene expression in multicellular organisms by affecting both the stability and translation of mRNAs. miRNAs are transcribed by RNA polymerase II as part of capped and polyadenylated primary transcripts (pri-miRNAs) that can be either protein-coding or non-coding. The primary transcript is cleaved by the Drosha ribonuclease III enzyme to produce an approximately 70-nt stem-loop precursor miRNA (pre-miRNA), which is further cleaved by the cytoplasmic Dicer ribonuclease to generate the mature miRNA and antisense miRNA star (miRNA*) products. The mature miRNA is incorporated into a RNA-induced silencing complex (RISC), which recognizes target mRNAs through imperfect base pairing with the miRNA and most commonly results in translational inhibition or destabilization of the target mRNA. The RefSeq represents the predicted microRNA stem-loop. [provided by RefSeq]
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: rno-mir-3589
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X143,778,757 - 143,778,868 (+)NCBIGRCr8
mRatBN7.2X138,742,465 - 138,742,576 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX138,742,465 - 138,742,576 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX140,952,225 - 140,952,336 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X144,493,216 - 144,493,327 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X142,048,913 - 142,049,024 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X143,516,992 - 143,517,103 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX143,516,992 - 143,517,103 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X143,545,578 - 143,545,689 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX134,812,488 - 134,812,599 (+)NCBICelera
Cytogenetic MapXq36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:16381832   PMID:20403161  


Genomics

miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:6366
Count of gene targets:4371
Count of transcripts:4704
Interacting mature miRNAs:rno-miR-3589
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
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
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
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX100567703150256146Rat
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
1598856Memor1Memory QTL 11.9exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)X103312877148312877Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X113937816152453651Rat
634346Insul4Insulin level QTL 40blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)X126975089152453651Rat


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 8 7 1 7 2
Low 8 16 1 16 1 7 7 7 8 5 8 7
Below cutoff 1 1 1 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_037387 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000054392
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX138,742,465 - 138,742,576 (+)Ensembl
Rnor_6.0 EnsemblX143,516,992 - 143,517,103 (+)Ensembl
RefSeq Acc Id: NR_037387
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X143,778,757 - 143,778,868 (+)NCBI
mRatBN7.2X138,742,465 - 138,742,576 (+)NCBI
Rnor_6.0X143,516,992 - 143,517,103 (+)NCBI
Rnor_5.0X143,545,578 - 143,545,689 (+)NCBI
CeleraX134,812,488 - 134,812,599 (+)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-876 BioCyc
Ensembl Genes ENSRNOG00000036269 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000054392 ENTREZGENE
miRBase MI0015467 ENTREZGENE
NCBI Gene 100526605 ENTREZGENE
PhenoGen Mir3589 PhenoGen
RatGTEx ENSRNOG00000036269 RatGTEx
RNAcentral URS000075BADB RNACentral
  URS000075C40D RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-04-09 Mir3589  microRNA 3589  Mir3589  microRNA mir-3589  Name updated 61478 APPROVED
2010-11-23 Mir3589  microRNA mir-3589      Symbol and Name status set to provisional 70820 PROVISIONAL