Basic Information
VIS ID
TVIS10015175
Fusion event
HBV-chr1 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
HBVgp1 Polymerase
Start
2738
Orient
+
Integrated sequence
ATGCCTGCCAGGTTTTATCCAAAGGTTACCAAATATTTACCATTGGATAAGGGTATTAAACCTTATTATCCAGAACATCTAGTTAATCATTACTTCCAAA| |CTAGACACTATTTACACACTCTATGGAAGGCGGGTATATTATATAAGAGAGAAACAACACATAGCGCCTCATTTTGTGGGTCACCATATTCTTGGGAACA
Host Sequence
Chromosome
chr1
Cytoband
p31.3
Reference genome
GRCh37/hg19
Start
64616818/64151135 (Hg38)
End
64616818/64151135 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1L
Target gene
ROR1 ; ROR1-AS1
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-7-5p ; hsa-mir-98-5p ; hsa-mir-19b-3p ; hsa-mir-3922-3p ; hsa-mir-3176 ; hsa-mir-3190-5p ; hsa-mir-27b-3p
Nearest miRNA
hsa-mir-12132/Upstream/824151; hsa-mir-101-1/Downstream/428712;
Nearest TSS
ENST00000473358/Upstream/38930; ENST00000646967/Downstream/20162;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/376027, chr1-CpG: 121/Downstream/318736
Upstream sequence
TGTAACAAACTGTTTTTTGgttaagcttctggcaggaaacacatggcacaagccgatagactaagggaaatgttataatgtaattatttagggaggcatt
Downstream sequence
ggcagaattaggagaaaccattaaggaaaggtgcgagacctggggctaacatgaatgggaggtattaccatcctagatcagttaccttaccttgcagaat
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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