MIR548E (microRNA 548e) - Rat Genome Database

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Gene: MIR548E (microRNA 548e) Homo sapiens
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Symbol: MIR548E
Name: microRNA 548e
RGD ID: 3476301
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-548e; MIRN548E
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl10110,988,926 - 110,989,013 (+)EnsemblGRCh38hg38GRCh38
GRCh3810110,988,926 - 110,989,013 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh3710112,748,684 - 112,748,771 (+)NCBIGRCh37GRCh37hg19GRCh37
Celera10106,480,270 - 106,480,357 (+)NCBI
Cytogenetic Map10q25.2ENTREZGENE
HuRef10106,377,431 - 106,377,518 (+)NCBIHuRef
CHM1_110113,030,500 - 113,030,587 (+)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
RASopathy  (IAGP)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References

References - curated
1. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16381832   PMID:18285502   PMID:23034410   PMID:31588496   PMID:31615875  


Genomics

miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:46786
Count of gene targets:12145
Count of transcripts:26452
Interacting mature miRNAs:hsa-miR-548e-3p, hsa-miR-548e-5p
Prediction methods:Microtar, Miranda, Pita, 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 4 3 38 2 1
Low 55 14 48 27 254 30 83 36 61 38 69 76 2 5 17 2
Below cutoff 22 13 9 1 15 1 31 16 16 11 15 33 1 8 16 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000408287
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl10110,988,926 - 110,989,013 (+)Ensembl
RefSeq Acc Id: NR_031614
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh3810110,988,926 - 110,989,013 (+)NCBI
GRCh3710112,748,684 - 112,748,771 (+)RGD
Celera10106,480,270 - 106,480,357 (+)RGD
HuRef10106,377,431 - 106,377,518 (+)ENTREZGENE
CHM1_110113,030,500 - 113,030,587 (+)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 10q25.1-26.3(chr10:108102587-133620674)x3 copy number gain See cases [RCV000133688] Chr10:108102587..133620674 [GRCh38]
Chr10:109862345..135434178 [GRCh37]
Chr10:109852335..135284168 [NCBI36]
Chr10:10q25.1-26.3
pathogenic
GRCh38/hg38 10q24.31-26.3(chr10:100600492-133622588)x3 copy number gain See cases [RCV000137747] Chr10:100600492..133622588 [GRCh38]
Chr10:102360249..135436092 [GRCh37]
Chr10:102350239..135286082 [NCBI36]
Chr10:10q24.31-26.3
pathogenic
GRCh38/hg38 10q25.2-25.3(chr10:110804735-114884010)x1 copy number loss See cases [RCV000139783] Chr10:110804735..114884010 [GRCh38]
Chr10:112564493..116643769 [GRCh37]
Chr10:112554483..116633759 [NCBI36]
Chr10:10q25.2-25.3
likely pathogenic
GRCh38/hg38 10q24.32-25.3(chr10:102732173-114085105)x1 copy number loss See cases [RCV000143371] Chr10:102732173..114085105 [GRCh38]
Chr10:104491930..115844864 [GRCh37]
Chr10:104481920..115834854 [NCBI36]
Chr10:10q24.32-25.3
pathogenic
GRCh38/hg38 10q23.33-25.3(chr10:95112607-116776637)x3 copy number gain See cases [RCV000050747] Chr10:95112607..116776637 [GRCh38]
Chr10:96872364..118383651 [GRCh37]
Chr10:96862354..118526138 [NCBI36]
Chr10:10q23.33-25.3
pathogenic
GRCh38/hg38 10q25.1-26.11(chr10:107191100-118761489)x1 copy number loss See cases [RCV000052570] Chr10:107191100..118761489 [GRCh38]
Chr10:108950858..120521001 [GRCh37]
Chr10:108940848..120510991 [NCBI36]
Chr10:10q25.1-26.11
pathogenic
GRCh38/hg38 10q23.31-26.3(chr10:91048545-133620674)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053560]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053560]|See cases [RCV000053560] Chr10:91048545..133620674 [GRCh38]
Chr10:92808302..135434178 [GRCh37]
Chr10:92798282..135284168 [NCBI36]
Chr10:10q23.31-26.3
pathogenic
GRCh38/hg38 10q24.31-26.3(chr10:100194215-132432797)x3 copy number gain See cases [RCV000053564] Chr10:100194215..132432797 [GRCh38]
Chr10:101953972..134246301 [GRCh37]
Chr10:101943962..134096291 [NCBI36]
Chr10:10q24.31-26.3
pathogenic
GRCh38/hg38 10q25.1-26.3(chr10:106925303-133620815)x3 copy number gain See cases [RCV000053588] Chr10:106925303..133620815 [GRCh38]
Chr10:108685061..135434319 [GRCh37]
Chr10:108675051..135284309 [NCBI36]
Chr10:10q25.1-26.3
pathogenic
NC_000010.10:g.(?_112327555)_(112771596_?)dup duplication Rasopathy [RCV000810682] Chr10:110567797..111011838 [GRCh38]
Chr10:112327555..112771596 [GRCh37]
Chr10:10q25.2
pathogenic

Additional Information

Database Acc Id Source(s)
COSMIC MIR548E COSMIC
Ensembl Genes ENSG00000221214 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000408287 ENTREZGENE
GTEx ENSG00000221214 GTEx
HGNC ID HGNC:35275 ENTREZGENE
Human Proteome Map MIR548E Human Proteome Map
miRBase MI0006344 ENTREZGENE
NCBI Gene 100313921 ENTREZGENE
PharmGKB PA164722824 PharmGKB
RNAcentral URS00000D2680 RNACentral
  URS0000759FC7 RNACentral
  URS000077B07D RNACentral