MIR6838 (microRNA 6838) - Rat Genome Database

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Pathways
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Gene: MIR6838 (microRNA 6838) Homo sapiens
Analyze
Symbol: MIR6838
Name: microRNA 6838
RGD ID: 8551131
HGNC Page HGNC:50050
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
Previously known as: hsa-mir-6838
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38744,073,378 - 44,073,433 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl744,073,378 - 44,073,433 (-)EnsemblGRCh38hg38GRCh38
GRCh37744,112,977 - 44,113,032 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map7p13NCBI
HuRef743,998,266 - 43,998,321 (-)NCBIHuRef
CHM1_1744,116,856 - 44,116,911 (-)NCBICHM1_1
T2T-CHM13v2.0744,231,877 - 44,231,932 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
aflatoxin B1  (EXP)

References
Additional References at PubMed
PMID:16381832   PMID:22955976   PMID:31693779   PMID:33254176   PMID:33939677   PMID:34856948   PMID:36215729   PMID:36444938   PMID:37130182  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 7p22.3-q36.3(chr7:54185-159282390)x1 copy number loss See cases [RCV000135401] Chr7:54185..159282390 [GRCh38]
Chr7:54185..159075079 [GRCh37]
Chr7:149268..158767840 [NCBI36]
Chr7:7p22.3-q36.3		 pathogenic
GRCh38/hg38 7p14.1-11.2(chr7:40534157-56107122)x1 copy number loss See cases [RCV000136092] Chr7:40534157..56107122 [GRCh38]
Chr7:40573756..56174815 [GRCh37]
Chr7:40540281..56142309 [NCBI36]
Chr7:7p14.1-11.2		 pathogenic
GRCh38/hg38 7p14.1-12.1(chr7:40020598-50543500)x1 copy number loss See cases [RCV000136904] Chr7:40020598..50543500 [GRCh38]
Chr7:40060197..50611198 [GRCh37]
Chr7:40026722..50578692 [NCBI36]
Chr7:7p14.1-12.1		 pathogenic
GRCh38/hg38 7p14.1-13(chr7:39063400-45363096)x1 copy number loss See cases [RCV000137305] Chr7:39063400..45363096 [GRCh38]
Chr7:39103000..45402695 [GRCh37]
Chr7:39069525..45369220 [NCBI36]
Chr7:7p14.1-13		 pathogenic
GRCh38/hg38 7p14.1-12.3(chr7:37303478-48660738)x1 copy number loss See cases [RCV000137139] Chr7:37303478..48660738 [GRCh38]
Chr7:37343082..48700334 [GRCh37]
Chr7:37309607..48670880 [NCBI36]
Chr7:7p14.1-12.3		 pathogenic
GRCh38/hg38 7p14.1-13(chr7:38177999-45304100)x1 copy number loss See cases [RCV000142297] Chr7:38177999..45304100 [GRCh38]
Chr7:38217601..45343699 [GRCh37]
Chr7:38184126..45310224 [NCBI36]
Chr7:7p14.1-13		 pathogenic
GRCh38/hg38 7p22.3-q36.3(chr7:53985-159282531)x1 copy number loss See cases [RCV000052250] Chr7:53985..159282531 [GRCh38]
Chr7:53985..159075220 [GRCh37]
Chr7:149068..158767981 [NCBI36]
Chr7:7p22.3-q36.3		 pathogenic
GRCh38/hg38 7p14.3-q11.21(chr7:33328312-62377476)x3 copy number gain See cases [RCV000053532] Chr7:33328312..62377476 [GRCh38]
Chr7:33367924..61831899 [GRCh37]
Chr7:33334449..61469334 [NCBI36]
Chr7:7p14.3-q11.21		 pathogenic
GRCh38/hg38 7p14.1-12.3(chr7:39814159-45749735)x1 copy number loss See cases [RCV000053132] Chr7:39814159..45749735 [GRCh38]
Chr7:39853758..45789334 [GRCh37]
Chr7:39820283..45755859 [NCBI36]
Chr7:7p14.1-12.3		 pathogenic
NM_013284.4(POLM):c.1399-21del deletion not provided [RCV000963041] Chr7:44073398 [GRCh38]
Chr7:44112997 [GRCh37]
Chr7:7p13		 benign
miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:48346
Count of gene targets:16056
Count of transcripts:36642
Interacting mature miRNAs:hsa-miR-6838-3p, hsa-miR-6838-5p
Prediction methods:Miranda, 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

circulatory system hemolymphoid system reproductive system
High
Medium
Low 2 5 2
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000611830
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl744,073,378 - 44,073,433 (-)Ensembl
RefSeq Acc Id: NR_106897
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38744,073,378 - 44,073,433 (-)NCBI
HuRef743,998,266 - 43,998,321 (-)NCBI
CHM1_1744,116,856 - 44,116,911 (-)NCBI
T2T-CHM13v2.0744,231,877 - 44,231,932 (-)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC MIR6838 COSMIC
Ensembl Genes ENSG00000283969 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000611830 ENTREZGENE
GTEx ENSG00000283969 GTEx
HGNC ID HGNC:50050 ENTREZGENE
Human Proteome Map MIR6838 Human Proteome Map
miRBase MI0022684 ENTREZGENE
NCBI Gene MIR6838 ENTREZGENE
RNAcentral URS000075CE63 RNACentral
  URS000075CEB9 RNACentral
  URS000075EF04 RNACentral