COL15A1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016525
Fusion event
HBV-COL15A1 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22267523
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
3210
End
3245
Orient
+
Host Sequence
Chromosome
chr9
Cytoband
q22.33
Reference genome
GRCh37/hg19
Start
101797435/99035153 (Hg38)
End
101797470/99035188 (Hg38)
Orient
-
Location type
Intronic
Target gene
COL15A1
miRNAs that regulate target gene
hsa-mir-29c-3p ; hsa-mir-335-5p ; hsa-mir-26b-5p ; hsa-mir-29b-3p
Nearest miRNA
hsa-let-7a-1/Upstream/805936; hsa-mir-12126/Downstream/7565740;
Nearest TSS
ENST00000422679/Upstream/91378; ENST00000496686/Downstream/3485;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/49352, chr9-CpG: 142/Downstream/69524
Nearby gene
GALNT12(-185072) ; TGFBR1(+69976) ;
Upstream sequence
gtgtgtactcaactaacagagtttaacctttcttttgatagagcatttttgaaacactctttttgtaggatcagcaagtggacattttgtgtgctttgag
Downstream sequence
TGTGTACTAAGGGCTACTAGAAAGACCAGCTAGCTAAACCCTGGTCTCagggcagaggctgtgcggattcccctgtgagccgccagcttccaacaccaca
Target sequence
GGTACTTTTCCCCTTTTCTGTGGTTATAAAAATGA
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
Curate