Basic Information
VIS ID
TVIS10014186
Fusion event
HBV-PRKN integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
Polymerase|large S protein|
Start
3149
Orient
-
Integrated sequence
CCCTCAGGCTCAGGGCATACTACAAACTTTGCCAGCAAATCCGCCTCCTGCCTCCACCAATCGCCAGTCAGGAAGGCAGCCTACCCCGCTGTCTCCACCT| |TTGAGAAACACTCATCCTCAGGCCATGCAGTGG
Host Sequence
Chromosome
chr6
Cytoband
q26
Reference genome
GRCh37/hg19
Start
163099130/162678098 (Hg38)
End
163099130/162678098 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6E
Target gene
PRKN
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-26b-5p ; hsa-mir-3187-3p ; hsa-mir-1303 ; hsa-mir-4435 ; hsa-mir-588 ; hsa-mir-4701-5p ; hsa-mir-548s ; hsa-mir-193b-5p ; hsa-mir-4755-3p ; hsa-mir-483-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-181a-5p
Nearest miRNA
hsa-mir-10398/Upstream/3913345; hsa-mir-1913/Downstream/3831256;
Nearest TSS
ENST00000381078/Upstream/402712; ENST00000544266/Downstream/49034;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/1031441, chr6-CpG: 75/Downstream/49246
Nearest cancer related gene
PRKN(TSG, No orient, 0)
Upstream sequence
GGCTTCTTCCAGCTGAATTTCCCAAAAGAAGATGATGTTGGTGATTCCTTCTTTACCTCTTCTTTTAACTGGAGTTTGATGCCAGTGTTCCTTTTATTTT
Downstream sequence
ttttgaaaatcatttcatgctgttgcatgtatcaataattcccttttattgttaaatagtattccattgtatagtatacaccaatttgtataaccattca
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.
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