MIR3679 (microRNA 3679) - Rat Genome Database

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Gene: MIR3679 (microRNA 3679) Homo sapiens
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Symbol: MIR3679
Name: microRNA 3679
RGD ID: 4888792
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-3679
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2134,127,125 - 134,127,192 (+)EnsemblGRCh38hg38GRCh38
GRCh382134,127,125 - 134,127,192 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372134,884,696 - 134,884,763 (+)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map2q21.2NCBI
HuRef2126,877,818 - 126,877,885 (+)NCBIHuRef
CHM1_12134,889,306 - 134,889,373 (+)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
paraquat  (EXP)

References
Additional References at PubMed
PMID:16381832   PMID:20224791   PMID:20459673   PMID:21037258   PMID:21199797   PMID:25538087   PMID:28798470   PMID:31926946   PMID:32125007  


Genomics

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
CD2BP2hsa-miR-3679-3pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248

Predicted Targets
Summary Value
Count of predictions:39302
Count of gene targets:13792
Count of transcripts:29601
Interacting mature miRNAs:hsa-miR-3679-3p, hsa-miR-3679-5p
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 sensory system adipose tissue appendage entire extraembryonic component
High
Medium 5 3 67 1 1 2
Low 75 12 31 21 160 24 60 26 54 28 74 50 2 5 3
Below cutoff 7 1 6 1 10 2 4 10 12 8 9 24 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000581102
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl2134,127,125 - 134,127,192 (+)Ensembl
RefSeq Acc Id: NR_037450
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382134,127,125 - 134,127,192 (+)NCBI
GRCh372134,884,696 - 134,884,763 (+)ENTREZGENE
HuRef2126,877,818 - 126,877,885 (+)ENTREZGENE
CHM1_12134,889,306 - 134,889,373 (+)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 2q14.3-22.1(chr2:123445762-140592538)x1 copy number loss See cases [RCV000136714] Chr2:123445762..140592538 [GRCh38]
Chr2:124203338..141350107 [GRCh37]
Chr2:123919808..141066577 [NCBI36]
Chr2:2q14.3-22.1
pathogenic
GRCh38/hg38 2q14.1-21.3(chr2:118086324-134964738)x1 copy number loss See cases [RCV000054058] Chr2:118086324..134964738 [GRCh38]
Chr2:118843900..135722308 [GRCh37]
Chr2:118560370..135438778 [NCBI36]
Chr2:2q14.1-21.3
pathogenic

Additional Information

Database Acc Id Source(s)
COSMIC MIR3679 COSMIC
Ensembl Genes ENSG00000263813 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000581102 ENTREZGENE
GTEx ENSG00000263813 GTEx
HGNC ID HGNC:38979 ENTREZGENE
Human Proteome Map MIR3679 Human Proteome Map
miRBase MI0016080 ENTREZGENE
NCBI Gene 100500878 ENTREZGENE
RNAcentral URS00000D0BB4 RNACentral
  URS00003E3F4E RNACentral
  URS000075AC34 RNACentral