MIR3129 (microRNA 3129) - Rat Genome Database

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Gene: MIR3129 (microRNA 3129) Homo sapiens
Analyze
Symbol: MIR3129
Name: microRNA 3129
RGD ID: 4109000
HGNC Page HGNC
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, Sep 2009]
Type: ncrna
RefSeq Status: PROVISIONAL
Also known as: mir-3129
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2189,133,036 - 189,133,111 (-)EnsemblGRCh38hg38GRCh38
GRCh382189,133,036 - 189,133,111 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372189,997,762 - 189,997,837 (-)NCBIGRCh37GRCh37hg19GRCh37
Celera2183,592,841 - 183,592,916 (-)NCBI
Cytogenetic Map2q32.2NCBI
HuRef2181,857,458 - 181,857,533 (-)NCBIHuRef
CHM1_12190,003,695 - 190,003,770 (-)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References
Additional References at PubMed
PMID:16381832   PMID:20224791   PMID:20300190   PMID:21037258   PMID:21199797   PMID:29915283   PMID:32965597  


Genomics

miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:21802
Count of gene targets:8398
Count of transcripts:16027
Interacting mature miRNAs:hsa-miR-3129-3p, hsa-miR-3129-5p
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.


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system adipose tissue appendage
High
Medium 1
Low 26 5 7 4 20 4 16 12 17 21 33 18 2 6
Below cutoff 10 5 7 1 6 1 7 14 11 7 2 8 3 2

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000581095
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl2189,133,036 - 189,133,111 (-)Ensembl
RefSeq Acc Id: NR_036076
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382189,133,036 - 189,133,111 (-)NCBI
GRCh372189,997,762 - 189,997,837 (-)RGD
Celera2183,592,841 - 183,592,916 (-)RGD
HuRef2181,857,458 - 181,857,533 (-)RGD
CHM1_12190,003,695 - 190,003,770 (-)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 2q32.2(chr2:188947503-189689613)x1 copy number loss See cases [RCV000135772] Chr2:188947503..189689613 [GRCh38]
Chr2:189812229..190554339 [GRCh37]
Chr2:189520474..190262584 [NCBI36]
Chr2:2q32.2
pathogenic
GRCh38/hg38 2q32.1-33.1(chr2:186027472-201059372)x1 copy number loss See cases [RCV000135876] Chr2:186027472..201059372 [GRCh38]
Chr2:186892199..201924095 [GRCh37]
Chr2:186600444..201632340 [NCBI36]
Chr2:2q32.1-33.1
pathogenic
GRCh38/hg38 2q31.1-32.2(chr2:171429233-189179568)x1 copy number loss See cases [RCV000136850] Chr2:171429233..189179568 [GRCh38]
Chr2:172285743..190044294 [GRCh37]
Chr2:171993989..189752539 [NCBI36]
Chr2:2q31.1-32.2
pathogenic
GRCh38/hg38 2q31.3-32.3(chr2:181758701-192015392)x1 copy number loss See cases [RCV000138253] Chr2:181758701..192015392 [GRCh38]
Chr2:182623428..192880118 [GRCh37]
Chr2:182331673..192588363 [NCBI36]
Chr2:2q31.3-32.3
pathogenic
GRCh38/hg38 2q31.3-36.2(chr2:180513793-224302848)x3 copy number gain See cases [RCV000139446] Chr2:180513793..224302848 [GRCh38]
Chr2:181378520..225167565 [GRCh37]
Chr2:181086765..224875809 [NCBI36]
Chr2:2q31.3-36.2
pathogenic
GRCh38/hg38 2q31.2-32.3(chr2:177827730-195125329)x1 copy number loss See cases [RCV000141735] Chr2:177827730..195125329 [GRCh38]
Chr2:178692457..195990053 [GRCh37]
Chr2:178400703..195698298 [NCBI36]
Chr2:2q31.2-32.3
pathogenic
GRCh38/hg38 2q31.1-32.3(chr2:176086763-193201970)x1 copy number loss See cases [RCV000143484] Chr2:176086763..193201970 [GRCh38]
Chr2:176951491..194066696 [GRCh37]
Chr2:176659737..193774941 [NCBI36]
Chr2:2q31.1-32.3
pathogenic
GRCh38/hg38 2q31.1-33.2(chr2:174898848-203941548)x1 copy number loss See cases [RCV000050980] Chr2:174898848..203941548 [GRCh38]
Chr2:175763576..204806271 [GRCh37]
Chr2:175471822..204514516 [NCBI36]
Chr2:2q31.1-33.2
pathogenic
GRCh38/hg38 2q32.2-37.3(chr2:188818195-242065208)x3 copy number gain See cases [RCV000052958] Chr2:188818195..242065208 [GRCh38]
Chr2:189682921..243007359 [GRCh37]
Chr2:189391166..242656032 [NCBI36]
Chr2:2q32.2-37.3
pathogenic
GRCh38/hg38 2q31.1-33.1(chr2:176304445-202039790)x1 copy number loss See cases [RCV000052558] Chr2:176304445..202039790 [GRCh38]
Chr2:177169173..202904513 [GRCh37]
Chr2:176877419..202612758 [NCBI36]
Chr2:2q31.1-33.1
pathogenic
GRCh38/hg38 2q31.2-33.1(chr2:177874070-198525492)x1 copy number loss See cases [RCV000052559] Chr2:177874070..198525492 [GRCh38]
Chr2:178738797..199390216 [GRCh37]
Chr2:178447043..199098461 [NCBI36]
Chr2:2q31.2-33.1
pathogenic
NC_000002.12:g.(?_188974470)_(189580480_?)del deletion Ehlers-Danlos syndrome, type 4 [RCV000634741] Chr2:188974470..189580480 [GRCh38]
Chr2:189839196..190445206 [GRCh37]
Chr2:2q32.2
pathogenic

Additional Information

Database Acc Id Source(s)
COSMIC MIR3129 COSMIC
Ensembl Genes ENSG00000264725 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000581095 ENTREZGENE
GTEx ENSG00000264725 GTEx
HGNC ID HGNC:38217 ENTREZGENE
Human Proteome Map MIR3129 Human Proteome Map
miRBase MI0014146 ENTREZGENE
NCBI Gene 100422908 ENTREZGENE
PharmGKB PA165696810 PharmGKB
RNAcentral URS00000F7766 RNACentral
  URS000033351F RNACentral
  URS000075992D RNACentral