hsa-mir-3944-5p _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016328
Fusion event
HBV-chr4 integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22267523
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1852
End
1874
Orient
+
Integrated sequence
CATGTCCTACTGTTCAAGCCTCC
Host Sequence
Chromosome
chr4
Cytoband
q23
Reference genome
GRCh37/hg19
Start
100047792/99126641 (Hg38)
End
100047900/99126749 (Hg38)
Orient
-
Location type
Intronic
Target gene
ADH4 ; LOC100507053
miRNAs that regulate target gene
hsa-mir-4666a-5p ; hsa-mir-8068 ; hsa-mir-143-5p ; hsa-mir-3944-5p ; hsa-mir-5087 ; hsa-mir-4764-5p ; hsa-mir-657 ; hsa-mir-3665 ; hsa-mir-4722-5p ; hsa-mir-1286 ; hsa-mir-873-5p ; hsa-mir-4748 ; hsa-mir-4464 ; hsa-mir-6841-5p ; hsa-mir-1265 ; hsa-mir-376c-3p
Nearest miRNA
hsa-mir-12113/Upstream/129181; hsa-mir-1243/Downstream/2114046;
Nearest TSS
ENST00000502981/Upstream/37690; ENST00000506454/Downstream/9788;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/37663, chr4-CpG: 40/Downstream/436821
Upstream sequence
CTTCTGGCGGGCCGCGTCTCCCGGGCCAGGGCCGAGATTCCCGCCGGTGCTGCCTCAGCTGGCGTGACCTCTCATTCTGAAACCAAATCTGGACCCTGGG
Downstream sequence
TGCAAAATAAAGACATGgcacttgacacgaagtagtttaatcagcatttgctgaatgaatgaaATTATTAGGTCAGATTTGGTTTGCTTCAAATAGATTA
Target sequence
GGCAGGGTATGGGTCACCAGTGCATCCAGATTGAATTTCTTATTCTTATAGTCAGTGACCAGCTTTGGGATAGAATCTACACTTTTCCAACCTGTAATGTGGACAAAA
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
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