MIR548Y (microRNA 548y) - Rat Genome Database

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Gene: MIR548Y (microRNA 548y) Homo sapiens
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Symbol: MIR548Y
Name: microRNA 548y
RGD ID: 4888754
HGNC Page HGNC:38980
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
GRCh381447,760,995 - 47,761,104 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1447,760,995 - 47,761,104 (-)EnsemblGRCh38hg38GRCh38
GRCh371448,230,198 - 48,230,307 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map14q21.3NCBI
CHM1_11448,168,774 - 48,168,883 (-)NCBICHM1_1
T2T-CHM13v2.01441,959,843 - 41,959,952 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:16381832   PMID:20498841  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 14q11.2-32.33(chr14:20151149-106855263)x3 copy number gain See cases [RCV000135543] Chr14:20151149..106855263 [GRCh38]
Chr14:20619308..107263478 [GRCh37]
Chr14:19689148..106334523 [NCBI36]
Chr14:14q11.2-32.33		 pathogenic
GRCh38/hg38 14q21.1-22.3(chr14:39196172-56714461)x3 copy number gain See cases [RCV000140717] Chr14:39196172..56714461 [GRCh38]
Chr14:39665376..57181179 [GRCh37]
Chr14:38735127..56250932 [NCBI36]
Chr14:14q21.1-22.3		 likely pathogenic
GRCh38/hg38 14q21.3(chr14:47284994-47805206)x3 copy number gain See cases [RCV000142539] Chr14:47284994..47805206 [GRCh38]
Chr14:47754197..48274409 [GRCh37]
Chr14:46823947..47344159 [NCBI36]
Chr14:14q21.3		 uncertain significance
GRCh38/hg38 14q11.2-32.33(chr14:20043514-106877229)x3 copy number gain See cases [RCV000143373] Chr14:20043514..106877229 [GRCh38]
Chr14:20511673..107285437 [GRCh37]
Chr14:19581513..106356482 [NCBI36]
Chr14:14q11.2-32.33		 pathogenic
GRCh38/hg38 14q11.2-21.3(chr14:20043513-48642042)x3 copy number gain See cases [RCV000143748] Chr14:20043513..48642042 [GRCh38]
Chr14:20511672..49111245 [GRCh37]
Chr14:19581512..48180995 [NCBI36]
Chr14:14q11.2-21.3		 pathogenic
miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:28066
Count of gene targets:9136
Count of transcripts:18612
Interacting mature miRNAs:hsa-miR-548y
Prediction methods:Microtar, Miranda, Pita, Pita,Targetscan, 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

adipose tissue
alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
entire extraembryonic component
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
4 14 1 2 48 16 50 2 10 33 10 33 69 48 13 26 13 41 39

Sequence


Ensembl Acc Id: ENST00000582739
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1447,760,995 - 47,761,104 (-)Ensembl
RefSeq Acc Id: NR_037503
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381447,760,995 - 47,761,104 (-)NCBI
GRCh371448,230,198 - 48,230,307 (-)NCBI
CHM1_11448,168,774 - 48,168,883 (-)NCBI
T2T-CHM13v2.01441,959,843 - 41,959,952 (-)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC MIR548Y COSMIC
Ensembl Genes ENSG00000263945 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000582739 ENTREZGENE
GTEx ENSG00000263945 GTEx
HGNC ID HGNC:38980 ENTREZGENE
Human Proteome Map MIR548Y Human Proteome Map
miRBase MI0016595 ENTREZGENE
NCBI Gene 100500919 ENTREZGENE
RNAcentral URS000026875B RNACentral
  URS000075B1BC RNACentral