MIR3650 (microRNA 3650) - Rat Genome Database

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Gene: MIR3650 (microRNA 3650) Homo sapiens
Analyze
Symbol: MIR3650
Name: microRNA 3650
RGD ID: 4888842
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
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl538,557,502 - 38,557,561 (-)EnsemblGRCh38hg38GRCh38
GRCh38538,557,502 - 38,557,561 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37538,557,604 - 38,557,663 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map5p13.1NCBI
HuRef538,509,389 - 38,509,448 (-)NCBIHuRef
CHM1_1538,559,549 - 38,559,608 (-)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:16381832   PMID:20483914   PMID:31163018  


Genomics

miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:15366
Count of gene targets:7079
Count of transcripts:12470
Interacting mature miRNAs:hsa-miR-3650
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 endocrine system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system entire extraembryonic component
High
Medium
Low 1 1 1 1 2 2 1
Below cutoff 1 2 4 1 1 3 6 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000581972
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl538,557,502 - 38,557,561 (-)Ensembl
RefSeq Acc Id: NR_037423
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38538,557,502 - 38,557,561 (-)NCBI
GRCh37538,557,604 - 38,557,663 (-)ENTREZGENE
HuRef538,509,389 - 38,509,448 (-)ENTREZGENE
CHM1_1538,559,549 - 38,559,608 (-)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 5p15.33-11(chr5:49978-46114984)x3 copy number gain See cases [RCV000135453] Chr5:49978..46114984 [GRCh38]
Chr5:50093..46115086 [GRCh37]
Chr5:103093..46150843 [NCBI36]
Chr5:5p15.33-11
pathogenic
GRCh38/hg38 5p13.2-q12.1(chr5:35201559-61903141)x3 copy number gain See cases [RCV000137302] Chr5:35201559..61903141 [GRCh38]
Chr5:35201661..61198968 [GRCh37]
Chr5:35237418..61234725 [NCBI36]
Chr5:5p13.2-q12.1
pathogenic
GRCh38/hg38 5p15.33-q13.3(chr5:22149-74412725)x3 copy number gain See cases [RCV000138780] Chr5:22149..74412725 [GRCh38]
Chr5:22149..73708550 [GRCh37]
Chr5:75149..73744306 [NCBI36]
Chr5:5p15.33-q13.3
pathogenic
GRCh38/hg38 5p13.1(chr5:38542122-38760928)x3 copy number gain See cases [RCV000138979] Chr5:38542122..38760928 [GRCh38]
Chr5:38542224..38761030 [GRCh37]
Chr5:38577981..38796787 [NCBI36]
Chr5:5p13.1
likely benign
GRCh38/hg38 5p13.1(chr5:38400157-38593979)x3 copy number gain See cases [RCV000140372] Chr5:38400157..38593979 [GRCh38]
Chr5:38400259..38594081 [GRCh37]
Chr5:38436016..38629838 [NCBI36]
Chr5:5p13.1
uncertain significance
GRCh38/hg38 5p15.33-12(chr5:54839-45649861)x3 copy number gain See cases [RCV000051810] Chr5:54839..45649861 [GRCh38]
Chr5:54954..45649963 [GRCh37]
Chr5:107954..45685720 [NCBI36]
Chr5:5p15.33-12
pathogenic
GRCh38/hg38 5p14.1-q11.1(chr5:26593632-50288555)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000051834]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000051834]|See cases [RCV000051834] Chr5:26593632..50288555 [GRCh38]
Chr5:26593741..49584389 [GRCh37]
Chr5:26629498..49620146 [NCBI36]
Chr5:5p14.1-q11.1
pathogenic
GRCh38/hg38 5p13.2-12(chr5:35700480-45260029)x3 copy number gain See cases [RCV000051835] Chr5:35700480..45260029 [GRCh38]
Chr5:35700582..45260131 [GRCh37]
Chr5:35736339..45295888 [NCBI36]
Chr5:5p13.2-12
pathogenic
GRCh38/hg38 5p13.2-q11.1(chr5:36374107-51103841)x3 copy number gain See cases [RCV000051836] Chr5:36374107..51103841 [GRCh38]
Chr5:36374209..50399675 [GRCh37]
Chr5:36409966..50435432 [NCBI36]
Chr5:5p13.2-q11.1
pathogenic
GRCh38/hg38 5p13.2-13.1(chr5:37016043-39383281)x3 copy number gain See cases [RCV000051837] Chr5:37016043..39383281 [GRCh38]
Chr5:37016145..39383383 [GRCh37]
Chr5:37051902..39419140 [NCBI36]
Chr5:5p13.2-13.1
pathogenic

Additional Information

Database Acc Id Source(s)
COSMIC MIR3650 COSMIC
Ensembl Genes ENSG00000265304 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000581972 ENTREZGENE
GTEx ENSG00000265304 GTEx
HGNC ID HGNC:38981 ENTREZGENE
Human Proteome Map MIR3650 Human Proteome Map
miRBase MI0016050 ENTREZGENE
NCBI Gene 100500824 ENTREZGENE
RNAcentral URS000075A656 RNACentral
  URS000075C93C RNACentral