MIR3142 (microRNA 3142) - Rat Genome Database
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Pathways
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Gene: MIR3142 (microRNA 3142) Homo sapiens
Analyze
Symbol: MIR3142
Name: microRNA 3142
RGD ID: 4108971
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
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl5160,474,402 - 160,474,483 (+)EnsemblGRCh38hg38GRCh38
GRCh385160,474,444 - 160,474,525 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh375159,901,451 - 159,901,532 (+)NCBIGRCh37GRCh37hg19GRCh37
Celera5155,933,925 - 155,934,006 (+)NCBI
Cytogenetic Map5q33.3NCBI
HuRef5154,994,875 - 154,994,956 (+)NCBIHuRef
CHM1_15159,334,353 - 159,334,434 (+)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
paraquat  (EXP)

References
Additional References at PubMed
PMID:16381832   PMID:20300190   PMID:30969093  


Genomics

miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:33986
Count of gene targets:14759
Count of transcripts:30445
Interacting mature miRNAs:hsa-miR-3142
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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system adipose tissue
High
Medium 1 6 1
Low 9 1 6 2 89 2 32 1 3 3 4 7
Below cutoff 2 2 15 1 5 1 3 7 3 2 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NR_036095 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC091842 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000582487
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl5160,474,402 - 160,474,483 (+)Ensembl
RefSeq Acc Id: NR_036095
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh385160,474,444 - 160,474,525 (+)NCBI
GRCh375159,901,451 - 159,901,532 (+)RGD
Celera5155,933,925 - 155,934,006 (+)RGD
HuRef5154,994,875 - 154,994,956 (+)ENTREZGENE
CHM1_15159,334,353 - 159,334,434 (+)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 5q33.3-35.3(chr5:156825512-181269805)x3 copy number gain See cases [RCV000133847] Chr5:156825512..181269805 [GRCh38]
Chr5:156252523..180696806 [GRCh37]
Chr5:156185101..180629412 [NCBI36]
Chr5:5q33.3-35.3		 pathogenic
GRCh38/hg38 5q33.1-34(chr5:152443869-166104392)x1 copy number loss See cases [RCV000138282] Chr5:152443869..166104392 [GRCh38]
Chr5:151823430..165531397 [GRCh37]
Chr5:151803623..165463975 [NCBI36]
Chr5:5q33.1-34		 pathogenic
GRCh38/hg38 5q33.3-34(chr5:158941354-164386760)x1 copy number loss See cases [RCV000138895] Chr5:158941354..164386760 [GRCh38]
Chr5:158368362..163813766 [GRCh37]
Chr5:158300940..163746344 [NCBI36]
Chr5:5q33.3-34		 pathogenic
GRCh38/hg38 5q32-35.3(chr5:149714592-181272151)x3 copy number gain See cases [RCV000051863] Chr5:149714592..181272151 [GRCh38]
Chr5:149094155..180699152 [GRCh37]
Chr5:149074348..180631758 [NCBI36]
Chr5:5q32-35.3		 pathogenic
GRCh38/hg38 5q33.3-35.3(chr5:160029980-181269805)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000051865]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000051865]|See cases [RCV000051865] Chr5:160029980..181269805 [GRCh38]
Chr5:159456987..180696806 [GRCh37]
Chr5:159389565..180629412 [NCBI36]
Chr5:5q33.3-35.3		 pathogenic
GRCh38/hg38 5q33.1-34(chr5:152761187-167248053)x1 copy number loss See cases [RCV000052144] Chr5:152761187..167248053 [GRCh38]
Chr5:152140747..166675058 [GRCh37]
Chr5:152120940..166607636 [NCBI36]
Chr5:5q33.1-34		 pathogenic
GRCh38/hg38 5q33.1-34(chr5:153195314-164014005)x1 copy number loss See cases [RCV000052145] Chr5:153195314..164014005 [GRCh38]
Chr5:152574874..163441011 [GRCh37]
Chr5:152555067..163373589 [NCBI36]
Chr5:5q33.1-34		 pathogenic

Additional Information

Database Acc Id Source(s)
COSMIC MIR3142 COSMIC
Ensembl Genes ENSG00000265237 Ensembl
GTEx ENSG00000265237 GTEx
HGNC ID HGNC:38297 ENTREZGENE
Human Proteome Map MIR3142 Human Proteome Map
miRBase MI0014166 ENTREZGENE
NCBI Gene 100422938 ENTREZGENE
PharmGKB PA165660380 PharmGKB
RNAcentral URS000075AADA RNACentral
  URS000075C0E1 RNACentral