MIR4639 (microRNA 4639) - Rat Genome Database

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Gene: MIR4639 (microRNA 4639) Homo sapiens
Analyze
Symbol: MIR4639
Name: microRNA 4639
RGD ID: 5134130
HGNC Page HGNC:41645
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 (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38616,141,556 - 16,141,624 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl616,141,556 - 16,141,624 (+)EnsemblGRCh38hg38GRCh38
GRCh37616,141,787 - 16,141,855 (+)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map6p22.3NCBI
HuRef616,089,023 - 16,089,091 (+)NCBIHuRef
CHM1_1616,144,489 - 16,144,557 (+)NCBICHM1_1
T2T-CHM13v2.0616,014,143 - 16,014,211 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:16381832   PMID:21199797   PMID:27362534   PMID:37101349  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 6p24.1-22.3(chr6:13311519-16295560)x3 copy number gain See cases [RCV000136133] Chr6:13311519..16295560 [GRCh38]
Chr6:13311751..16295791 [GRCh37]
Chr6:13419730..16403770 [NCBI36]
Chr6:6p24.1-22.3		 pathogenic
GRCh38/hg38 6p23-22.3(chr6:14730556-17554091)x1 copy number loss See cases [RCV000137275] Chr6:14730556..17554091 [GRCh38]
Chr6:14730787..17554322 [GRCh37]
Chr6:14838766..17662301 [NCBI36]
Chr6:6p23-22.3		 likely pathogenic
GRCh38/hg38 6p25.2-21.33(chr6:3224310-30657190)x3 copy number gain See cases [RCV000138956] Chr6:3224310..30657190 [GRCh38]
Chr6:3224544..30624967 [GRCh37]
Chr6:3169543..30732946 [NCBI36]
Chr6:6p25.2-21.33		 pathogenic
GRCh38/hg38 6p25.3-22.3(chr6:155807-17058414)x3 copy number gain See cases [RCV000140307] Chr6:155807..17058414 [GRCh38]
Chr6:155807..17058645 [GRCh37]
Chr6:100807..17166624 [NCBI36]
Chr6:6p25.3-22.3		 pathogenic
GRCh38/hg38 6p23-22.3(chr6:14958760-18580908)x3 copy number gain See cases [RCV000140810] Chr6:14958760..18580908 [GRCh38]
Chr6:14958991..18581139 [GRCh37]
Chr6:15066970..18689118 [NCBI36]
Chr6:6p23-22.3		 uncertain significance
GRCh38/hg38 6p25.2-22.3(chr6:2862640-16697788)x1 copy number loss See cases [RCV000142435] Chr6:2862640..16697788 [GRCh38]
Chr6:2862874..16698019 [GRCh37]
Chr6:2807873..16805998 [NCBI36]
Chr6:6p25.2-22.3		 pathogenic
GRCh38/hg38 6p25.3-12.3(chr6:156974-46789291)x3 copy number gain See cases [RCV000143497] Chr6:156974..46789291 [GRCh38]
Chr6:156974..46757028 [GRCh37]
Chr6:101974..46864987 [NCBI36]
Chr6:6p25.3-12.3		 pathogenic
GRCh38/hg38 6p25.3-22.3(chr6:106431-18360595)x3 copy number gain See cases [RCV000051869] Chr6:106431..18360595 [GRCh38]
Chr6:106431..18360826 [GRCh37]
Chr6:51431..18468805 [NCBI36]
Chr6:6p25.3-22.3		 pathogenic
GRCh38/hg38 6p24.1-22.3(chr6:13093117-22126024)x3 copy number gain See cases [RCV000051897] Chr6:13093117..22126024 [GRCh38]
Chr6:13093349..22126253 [GRCh37]
Chr6:13201335..22234232 [NCBI36]
Chr6:6p24.1-22.3		 pathogenic
GRCh38/hg38 6p23-22.3(chr6:13684282-16645068)x1 copy number loss See cases [RCV000052179] Chr6:13684282..16645068 [GRCh38]
Chr6:13684514..16645299 [GRCh37]
Chr6:13792493..16753278 [NCBI36]
Chr6:6p23-22.3		 pathogenic
miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:24270
Count of gene targets:10080
Count of transcripts:19264
Interacting mature miRNAs:hsa-miR-4639-3p, hsa-miR-4639-5p
Prediction methods:Microtar, Miranda, Pita, Pita,Targetscan, 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 1 7 7 1 97 2 2 3 2 14 4 1
Low 112 33 134 75 301 75 166 45 66 122 174 213 2 10 12 4
Below cutoff 9 10 6 12 1 24 9 19 11 10 11 12 14

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000584938
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl616,141,556 - 16,141,624 (+)Ensembl
RefSeq Acc Id: NR_039782
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38616,141,556 - 16,141,624 (+)NCBI
GRCh37616,141,787 - 16,141,855 (+)NCBI
HuRef616,089,023 - 16,089,091 (+)NCBI
CHM1_1616,144,489 - 16,144,557 (+)NCBI
T2T-CHM13v2.0616,014,143 - 16,014,211 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC MIR4639 COSMIC
Ensembl Genes ENSG00000263712 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000584938 ENTREZGENE
GTEx ENSG00000263712 GTEx
HGNC ID HGNC:41645 ENTREZGENE
Human Proteome Map MIR4639 Human Proteome Map
miRBase MI0017266 ENTREZGENE
NCBI Gene 100616269 ENTREZGENE
RNAcentral URS00003F2CCA RNACentral
  URS0000465D9A RNACentral
  URS000075D0AD RNACentral