MIR3938 (microRNA 3938) - Rat Genome Database

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Gene: MIR3938 (microRNA 3938) Homo sapiens
Analyze
Symbol: MIR3938
Name: microRNA 3938
RGD ID: 4888793
HGNC Page HGNC:38972
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
GRCh38355,852,492 - 55,852,594 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl355,852,492 - 55,852,594 (-)EnsemblGRCh38hg38GRCh38
GRCh37355,886,520 - 55,886,622 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map3p14.3NCBI
HuRef355,935,338 - 55,935,440 (-)NCBIHuRef
CHM1_1355,837,583 - 55,837,685 (-)NCBICHM1_1
T2T-CHM13v2.0355,892,798 - 55,892,900 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:16381832   PMID:20498841   PMID:35002529  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 3p21.1-14.1(chr3:54045018-66060461)x1 copy number loss See cases [RCV000051081] Chr3:54045018..66060461 [GRCh38]
Chr3:54079045..66046136 [GRCh37]
Chr3:54054085..66021176 [NCBI36]
Chr3:3p21.1-14.1		 pathogenic
GRCh38/hg38 3p21.1-14.3(chr3:53287477-57025368)x1 copy number loss See cases [RCV000053929] Chr3:53287477..57025368 [GRCh38]
Chr3:53321495..57059396 [GRCh37]
Chr3:53296535..57034436 [NCBI36]
Chr3:3p21.1-14.3		 uncertain significance
miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:11769
Count of gene targets:5709
Count of transcripts:10117
Interacting mature miRNAs:hsa-miR-3938
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 circulatory system endocrine system hemolymphoid system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium
Low 2 8 17 3 11 1 5 2 1
Below cutoff 5 2 4 3 3 6 21 2 3 10 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000582157
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl355,852,492 - 55,852,594 (-)Ensembl
RefSeq Acc Id: NR_037502
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38355,852,492 - 55,852,594 (-)NCBI
GRCh37355,886,520 - 55,886,622 (-)ENTREZGENE
HuRef355,935,338 - 55,935,440 (-)ENTREZGENE
CHM1_1355,837,583 - 55,837,685 (-)NCBI
T2T-CHM13v2.0355,892,798 - 55,892,900 (-)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC MIR3938 COSMIC
Ensembl Genes ENSG00000264013 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000582157 ENTREZGENE
GTEx ENSG00000264013 GTEx
HGNC ID HGNC:38972 ENTREZGENE
Human Proteome Map MIR3938 Human Proteome Map
miRBase MI0016594 ENTREZGENE
NCBI Gene 100500875 ENTREZGENE
RNAcentral URS000075E1AC RNACentral
  URS000075EB68 RNACentral