MIR646 (microRNA 646) - Rat Genome Database

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Gene: MIR646 (microRNA 646) Homo sapiens
Analyze
Symbol: MIR646
Name: microRNA 646
RGD ID: 1602909
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: hsa-mir-646; MIRN646
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2060,308,474 - 60,308,567 (+)EnsemblGRCh38hg38GRCh38
GRCh382060,308,474 - 60,308,567 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372058,883,532 - 58,883,625 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362058,316,926 - 58,317,019 (+)NCBINCBI36hg18NCBI36
Celera2055,624,184 - 55,624,277 (+)NCBI
Cytogenetic Map20q13.33NCBI
HuRef2055,670,622 - 55,670,715 (+)NCBIHuRef
CHM1_12058,784,635 - 58,784,728 (+)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

References

References - curated
1. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16381832   PMID:16505370   PMID:20306291   PMID:25010867   PMID:25177719   PMID:27462913   PMID:28632723   PMID:29343850   PMID:29466670   PMID:31846689   PMID:31951319   PMID:32196384  
PMID:32259632   PMID:32266733   PMID:32347652   PMID:32378344   PMID:32777446   PMID:33150676   PMID:33335643  


Genomics

miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:31782
Count of gene targets:13161
Count of transcripts:27724
Interacting mature miRNAs:hsa-miR-646
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
High
Medium 1 3 2 15 2 2 3 2 1
Low 43 60 95 32 149 31 110 32 84 40 92 156 3 13 79
Below cutoff 58 95 46 14 74 9 103 58 84 11 47 43 5 31 78

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_030376 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AL035070 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000385067
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl2060,308,474 - 60,308,567 (+)Ensembl
RefSeq Acc Id: NR_030376
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382060,308,474 - 60,308,567 (+)NCBI
GRCh372058,883,532 - 58,883,625 (+)RGD
Celera2055,624,184 - 55,624,277 (+)RGD
HuRef2055,670,622 - 55,670,715 (+)ENTREZGENE
CHM1_12058,784,635 - 58,784,728 (+)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 20q13.32-13.33(chr20:59041966-64277321)x3 copy number gain See cases [RCV000135805] Chr20:59041966..64277321 [GRCh38]
Chr20:57617021..62908674 [GRCh37]
Chr20:57050416..62379118 [NCBI36]
Chr20:20q13.32-13.33
pathogenic
GRCh38/hg38 20p13-q13.33(chr20:99557-64277321)x3 copy number gain See cases [RCV000135859] Chr20:99557..64277321 [GRCh38]
Chr20:80198..62908674 [GRCh37]
Chr20:28198..62379118 [NCBI36]
Chr20:20p13-q13.33
pathogenic
GRCh38/hg38 20q13.2-13.33(chr20:55630597-60941207)x3 copy number gain See cases [RCV000135622] Chr20:55630597..60941207 [GRCh38]
Chr20:54220678..59516263 [GRCh37]
Chr20:53639062..58949658 [NCBI36]
Chr20:20q13.2-13.33
likely pathogenic
GRCh38/hg38 20q13.2-13.33(chr20:56198032-64277321)x3 copy number gain See cases [RCV000138035] Chr20:56198032..64277321 [GRCh38]
Chr20:54773088..62908674 [GRCh37]
Chr20:54206495..62379118 [NCBI36]
Chr20:20q13.2-13.33
pathogenic
GRCh38/hg38 20q13.31-13.33(chr20:57229415-64273089)x3 copy number gain See cases [RCV000141347] Chr20:57229415..64273089 [GRCh38]
Chr20:55804471..62904442 [GRCh37]
Chr20:55237878..62374886 [NCBI36]
Chr20:20q13.31-13.33
pathogenic
GRCh38/hg38 20q13.2-13.33(chr20:53236165-64284202)x3 copy number gain See cases [RCV000143584] Chr20:53236165..64284202 [GRCh38]
Chr20:51852704..62915555 [GRCh37]
Chr20:51286111..62385999 [NCBI36]
Chr20:20q13.2-13.33
likely pathogenic
GRCh38/hg38 20q13.12-13.33(chr20:44787704-64277321)x3 copy number gain See cases [RCV000053035] Chr20:44787704..64277321 [GRCh38]
Chr20:43416345..62908674 [GRCh37]
Chr20:42849759..62379118 [NCBI36]
Chr20:20q13.12-13.33
pathogenic

Additional Information

Database Acc Id Source(s)
COSMIC MIR646 COSMIC
Ensembl Genes ENSG00000207802 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000385067 ENTREZGENE
GTEx ENSG00000207802 GTEx
HGNC ID HGNC:32902 ENTREZGENE
Human Proteome Map MIR646 Human Proteome Map
miRBase MI0003661 ENTREZGENE
NCBI Gene 693231 ENTREZGENE
PharmGKB PA164722942 PharmGKB
RNAcentral URS0000759ED4 RNACentral
  URS000075CDB8 RNACentral