Basic Information
VIS ID
TVIS10014956
Fusion event
HBV-CCSER1 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22634754
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
HBVgp3 X protein;HBVgp4 precore/core protein
Start
1826
Orient
-
Integrated sequence
AAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTT| |TCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAA
Host Sequence
Chromosome
chr4
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
91202521/90281370 (Hg38)
End
91202521/90281370 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA4E
Target gene
CCSER1
miRNAs that regulate target gene
hsa-mir-544a
Nearest miRNA
hsa-mir-12113/Upstream/2980787; hsa-mir-1243/Downstream/8716017;
Nearest TSS
ENST00000502981/Upstream/46339; ENST00000508550/Downstream/28122;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/152839, chr4-CpG: 22/Downstream/557518
Upstream sequence
TAAAAGCCCAGTGAGAAAACTCAAAGGAAAATGATAGCCCCTTTTACACTGAGACTTGAATGTGATGTTGAAGCATTTTGAAAAAATGTCAAAAACAGTG
Downstream sequence
ctacctattgggaactatgcttattacctgggtgatgaaataatatgtacagcaaacccccatgacatgcagtttatctataaagtcaaggtgcacatgt
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
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