VISDB Viral Integration Site DataBase

VIS ID

TVIS10007478

Fusion event

HBV-chr5 integration

Validated

No

Detection method

NGS

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2018

PubMed ID

Virus name

HBV

Reference genome

Region type

Polymerase|large S protein|middle S protein|

Start

104

Orient

+

Integrated sequence

CCACAACCTTCCACCAAACTCTGCAAGATCCCAGAGTGAGAGGCCTGTATTTCCCTGCTGGTGGCTCCAGTTCAGGAACAGTAAACCCTGTTCTGACTAC| |TGCCTCTCCCTTATCGTCAATCTTCTCGAGGATTGGGGACCCTGCGCTGAACATGGAGAACATCACATCAGGATTCCTAGGACCCCTTCTCGTGTTACAG

Chromosome

chr5

Cytoband

q31.3

Reference genome

Start

End

140318779/140939194 (Hg38)

Orient

+

Location type

Intronic

Target gene

PCDHA1 ; PCDHA10 ; PCDHA11 ; PCDHA12 ; PCDHA13 ; PCDHA2 ; PCDHA3 ; PCDHA4 ; PCDHA5 ; PCDHA6 ; PCDHA7 ; PCDHA8 ; PCDHA9 ; PCDHAC1

miRNAs that regulate target gene

hsa-mir-148b-3p ; hsa-mir-26b-5p ; hsa-mir-26b-5p ; hsa-mir-26b-5p ; hsa-mir-320c ; hsa-mir-181a-5p ; hsa-mir-181a-5p ; hsa-mir-181a-5p ; hsa-mir-181a-5p ; hsa-mir-181a-5p ; hsa-mir-181a-5p ; hsa-mir-181a-5p ; hsa-mir-181a-5p ; hsa-mir-181a-5p ; hsa-mir-181a-5p ; hsa-mir-181a-5p ; hsa-mir-181a-5p ; hsa-mir-181a-5p ; hsa-mir-221-3p ; hsa-mir-221-3p ; hsa-mir-221-3p ; hsa-mir-221-3p ; hsa-mir-221-3p ; hsa-mir-221-3p ; hsa-mir-221-3p ; hsa-mir-221-3p ; hsa-mir-221-3p ; hsa-mir-221-3p ; hsa-mir-221-3p ; hsa-mir-221-3p ; hsa-mir-221-3p ; hsa-mir-511-5p ; hsa-mir-488-3p ; hsa-mir-376c-5p ; hsa-mir-376b-5p ; hsa-mir-431-5p ; hsa-mir-4791 ; hsa-mir-3201 ; hsa-mir-3145-3p ; hsa-mir-4635 ; hsa-mir-3681-5p ; hsa-mir-6849-5p ; hsa-mir-548l ; hsa-mir-7152-5p ; hsa-mir-3074-5p ; hsa-mir-27b-5p ; hsa-mir-627-3p ; hsa-mir-1914-5p ; hsa-mir-498 ; hsa-mir-6836-3p ; hsa-mir-5001-3p ; hsa-mir-4279 ; hsa-mir-6791-3p ; hsa-mir-6829-3p ; hsa-mir-6778-3p ; hsa-mir-4772-3p ; hsa-mir-3653-5p ; hsa-mir-1976 ; hsa-mir-1304-3p ; hsa-mir-5699-3p ; hsa-mir-4421 ; hsa-mir-6748-3p ; hsa-mir-6837-5p ; hsa-mir-4685-5p ; hsa-mir-7113-5p ; hsa-mir-6823-5p ; hsa-mir-6890-3p ; hsa-mir-5571-5p ; hsa-mir-6882-3p ; hsa-mir-7157-3p ; hsa-mir-6737-3p ; hsa-mir-5008-3p ; hsa-mir-6513-5p ; hsa-mir-887-5p ; hsa-mir-3913-5p ; hsa-mir-3122 ; hsa-mir-450a-1-3p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-7160-5p ; hsa-mir-4722-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-4649-3p ; hsa-mir-665 ; hsa-mir-4768-3p ; hsa-mir-6500-3p ; hsa-mir-5002-5p ; hsa-mir-3614-5p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-34b-3p ; hsa-mir-4284 ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-6741-3p

Nearest miRNA

hsa-mir-10397/Upstream/291268; hsa-mir-103a-1/Downstream/2740666;

Nearest TSS

Nearest CpG islands

None/Target, chr5-CpG: 87/Upstream/11586, chr5-CpG: 80/Downstream/27326

Upstream sequence

gtagattctggatattagccctttgtcagatgagtaggttgcgaaaattttctcccatgttgtaggttgcctgttcactctgatggtagtttcttaattc

Downstream sequence

cagaatgtcaccttcttgctgtctcttcaccttctggaaggagcaaggtagctctctggaacctcttttatgagagctgtgccctcgtgatctaatcatc