MIR548X (microRNA 548x) - Rat Genome Database

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Gene: MIR548X (microRNA 548x) Homo sapiens
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Symbol: MIR548X
Name: microRNA 548x
RGD ID: 4108995
HGNC Page HGNC:38248
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
GRCh382118,686,090 - 18,686,164 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2118,686,090 - 18,686,164 (-)EnsemblGRCh38hg38GRCh38
GRCh372120,058,408 - 20,058,482 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map21q21.1NCBI
HuRef215,446,244 - 5,446,318 (-)NCBIHuRef
CHM1_12119,619,489 - 19,619,563 (-)NCBICHM1_1
T2T-CHM13v2.02117,045,652 - 17,045,726 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model



  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
MIR548XHumanchromium(6+) multiple interactionsEXP 6480464[zinc chromate results in increased abundance of chromium hexavalent ion] which results in increased expression of MIR548X mRNACTDPMID:35101437

PMID:16381832   PMID:20300190   PMID:37757977  



.

1 to 10 of 44 rows
Name
Type
Condition(s)
Position(s)
Clinical significance
GRCh38/hg38 21q22.11-22.3(chr21:7749532-46670346)x3 copy number gain See cases [RCV000135310] Chr21:7749532..46670346 [GRCh38]
Chr21:34111831..48090258 [GRCh37]
Chr21:33033702..46914686 [NCBI36]
Chr21:21q22.11-22.3		 pathogenic
GRCh38/hg38 21p11.2-q22.3(chr21:7749532-42971047)x3 copy number gain See cases [RCV000133676] Chr21:7749532..42971047 [GRCh38]
Chr21:15499847..44391157 [GRCh37]
Chr21:14421718..43264226 [NCBI36]
Chr21:21p11.2-q22.3		 pathogenic
GRCh38/hg38 21p11.2-q22.3(chr21:7749532-46653084)x3 copy number gain See cases [RCV000134727] Chr21:7749532..46653084 [GRCh38]
Chr21:15485038..48072996 [GRCh37]
Chr21:14406909..46897424 [NCBI36]
Chr21:21p11.2-q22.3		 pathogenic
GRCh38/hg38 21q11.2-22.3(chr21:7749532-46649831)x3 copy number gain See cases [RCV000134509] Chr21:7749532..46649831 [GRCh38]
Chr21:14577835..48069743 [GRCh37]
Chr21:13499706..46894171 [NCBI36]
Chr21:21q11.2-22.3		 pathogenic
GRCh38/hg38 21p11.2-q22.3(chr21:7749532-46670440)x3 copy number gain See cases [RCV000134119] Chr21:7749532..46670440 [GRCh38]
Chr21:15485038..48090352 [GRCh37]
Chr21:14406909..46914780 [NCBI36]
Chr21:21p11.2-q22.3		 pathogenic
GRCh38/hg38 21p11.2-q22.3(chr21:7749532-46664250)x3 copy number gain See cases [RCV000134836] Chr21:7749532..46664250 [GRCh38]
Chr21:15485038..48084162 [GRCh37]
Chr21:14406909..46908590 [NCBI36]
Chr21:21p11.2-q22.3		 pathogenic
GRCh38/hg38 21p11.2-q22.3(chr21:7749532-46670440)x3 copy number gain See cases [RCV000134842] Chr21:7749532..46670440 [GRCh38]
Chr21:15513244..48090352 [GRCh37]
Chr21:14435115..46914780 [NCBI36]
Chr21:21p11.2-q22.3		 pathogenic
GRCh38/hg38 21q21.1-21.2(chr21:16872635-24024990)x3 copy number gain See cases [RCV000135653] Chr21:16872635..24024990 [GRCh38]
Chr21:18244955..25397305 [GRCh37]
Chr21:17166826..24319176 [NCBI36]
Chr21:21q21.1-21.2		 uncertain significance
GRCh38/hg38 21p11.2-q22.3(chr21:7749532-46660999)x3 copy number gain See cases [RCV000135448] Chr21:7749532..46660999 [GRCh38]
Chr21:15499847..48080911 [GRCh37]
Chr21:14421718..46905339 [NCBI36]
Chr21:21p11.2-q22.3		 pathogenic
GRCh38/hg38 21q21.1-21.2(chr21:15341716-22826315)x1 copy number loss See cases [RCV000136931] Chr21:15341716..22826315 [GRCh38]
Chr21:16714035..24198636 [GRCh37]
Chr21:15635906..23120507 [NCBI36]
Chr21:21q21.1-21.2		 pathogenic
1 to 10 of 44 rows

Predicted Targets
Summary Value
Count of predictions:24201
Count of gene targets:8377
Count of transcripts:16865
Interacting mature miRNAs:hsa-miR-548x-5p
Prediction methods:Microtar, Miranda, Pita, Pita,Microtar, 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.


The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
2303081MAMTS49_HMammary tumor susceptibility QTL 49 (human)1.72Mammary tumor susceptibility211795044843950448Human




adipose tissue
alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
1 3 2 3 2 9 1 9 1 15 14 4 3 3 8


RefSeq Transcripts NR_036166 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AP001537 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CP068257 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENST00000580069
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl2118,686,090 - 18,686,164 (-)Ensembl
RefSeq Acc Id: NR_036166
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382118,686,090 - 18,686,164 (-)NCBI
GRCh372120,058,408 - 20,058,482 (-)ENTREZGENE
HuRef215,446,244 - 5,446,318 (-)ENTREZGENE
CHM1_12119,619,489 - 19,619,563 (-)NCBI
T2T-CHM13v2.02117,045,652 - 17,045,726 (-)NCBI
Sequence:


1 to 12 of 12 rows
Database
Acc Id
Source(s)
COSMIC MIR548X COSMIC
Ensembl Genes ENSG00000265841 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000580069 ENTREZGENE
GTEx ENSG00000265841 GTEx
HGNC ID HGNC:38248 ENTREZGENE
Human Proteome Map MIR548X Human Proteome Map
miRBase MI0014244 ENTREZGENE
NCBI Gene 100422920 ENTREZGENE
PharmGKB PA165378434 PharmGKB
RNAcentral URS000043D2C1 RNACentral
  URS00004BC299 RNACentral
  URS000075D953 RNACentral
1 to 12 of 12 rows