VISDB Viral Integration Site DataBase

VIS ID

TVIS10009327

Fusion event

HBV-R3HDM2 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|

Start

2470

Orient

+

Integrated sequence

AGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTATTCCTTGGACTCAT| |AAGGTGGGGAACTTTACTGGGCTTTATTCTTCTACTGTACCTGTCTTTAATCCTCATTGGAAAACACCATCTTTTCCTAATATACATTTACACCAAGACA

Chromosome

chr12

Cytoband

q13.3

Reference genome

Start

End

57807879/57414096 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-671-5p ; hsa-mir-125b-5p ; hsa-let-7c-5p ; hsa-mir-6895-5p ; hsa-mir-1972 ; hsa-mir-6079 ; hsa-mir-7977 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-6828-5p ; hsa-mir-4755-3p ; hsa-mir-4786-3p ; hsa-mir-4673 ; hsa-mir-4645-5p ; hsa-mir-5693 ; hsa-mir-6715b-5p ; hsa-mir-4269 ; hsa-mir-3681-3p ; hsa-mir-216a-3p ; hsa-mir-128-3p ; hsa-mir-5582-5p ; hsa-mir-1299 ; hsa-mir-3202 ; hsa-mir-4493 ; hsa-mir-4533 ; hsa-mir-6128 ; hsa-mir-875-3p ; hsa-mir-518c-5p ; hsa-mir-383-3p ; hsa-mir-514a-5p ; hsa-mir-4753-5p

Nearest miRNA

hsa-mir-1228/Upstream/219520; hsa-let-7i/Downstream/98592;

Nearest TSS

Nearest CpG islands

None/Target, chr12-CpG: 104/Upstream/170206, chr12-CpG: 99/Downstream/61196

Nearby gene

R3HDM2(-103633) ; INHBC(+20664) ;

Upstream sequence

caccatacccagctaaatttttttgtatttttagtagagagcgggtttcatcatgttggtcaggctggtcttgaactcctgacctcaaatgatccaccca

Downstream sequence

cctcagcctcccagagtgctgggatcacaggcgtgagccaccttgcccagccCACTCTATCTTTTTTTTACTACAAATAACTAATCTCATAAAAATAACA