VISDB Viral Integration Site DataBase

VIS ID

TVIS10008752

Fusion event

HBV-ABCD2 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

2616

Orient

+

Integrated sequence

TTAATCCTCATTGGAAAACACCATCTTTTCCTAATATACATTTACACCAAGACATTATCAAAAAATGTGAACAGTTTGTAGGCCCACTCACAGTTAATGA| |GAAAAGAAGATTGCAATTGATTATGCCTGCCAGGTTTTATCCAAAGGTTACCAAATATTTACCATTGGATAAGGGTATTAAACCTTATTATCCAGAACAT

Chromosome

chr12

Cytoband

q12

Reference genome

Start

End

39976278/39582476 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-411-5p ; hsa-mir-3117-3p ; hsa-mir-3607-3p ; hsa-mir-1208 ; hsa-mir-8083 ; hsa-mir-3169 ; hsa-mir-4759 ; hsa-mir-4276 ; hsa-mir-1257 ; hsa-mir-15b-3p ; hsa-mir-5187-3p ; hsa-mir-5190 ; hsa-mir-4699-3p ; hsa-mir-5094 ; hsa-mir-4724-5p ; hsa-mir-4671-3p ; hsa-mir-454-3p ; hsa-mir-4295 ; hsa-mir-3666 ; hsa-mir-301a-3p ; hsa-mir-301b-3p ; hsa-mir-130b-3p ; hsa-mir-130a-3p ; hsa-mir-4267 ; hsa-mir-5586-5p ; hsa-mir-605-5p ; hsa-mir-576-5p ; hsa-mir-4263 ; hsa-mir-3074-5p ; hsa-mir-627-3p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-5003-3p

Nearest miRNA

hsa-mir-1244-3/Upstream/13708397; hsa-let-7i/Downstream/2741224;

Nearest TSS

Nearest CpG islands

None/Target, chr12-CpG: 104/Upstream/138779, chr12-CpG: 108/Downstream/522684

Upstream sequence

actattatggatattaaataatgatatatgtaaattccacatagtaagcactcaataGCCCATAACAATTACGATTACATTTTTAAGTTTGGAAAATTCT

Downstream sequence

TGGAAAGAGTTCTAGACCTTCCTGATGACTTCCAAAAGAATAGAATATTTCATGTTTATTCTAAATTTCTATTTGGATCATTAGATTTCAAACGTCCTCA