VISDB Viral Integration Site DataBase

VIS ID

TVIS10012270

Fusion event

HBV-GTDC1 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

precore/core protein|

Start

1853

Orient

+

Integrated sequence

ATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTC| |ATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCG

Chromosome

chr2

Cytoband

q22.3

Reference genome

Start

End

145026980/144269413 (Hg38)

Orient

+

Location type

Intronic

Fragile sites / regions

FRA2S ; FRA2K

Target gene

miRNAs that regulate target gene

hsa-mir-155-3p ; hsa-mir-8064 ; hsa-mir-483-3p ; hsa-mir-5580-3p ; hsa-mir-603 ; hsa-mir-8485 ; hsa-mir-335-3p ; hsa-mir-1305 ; hsa-mir-642a-5p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-4469 ; hsa-mir-6832-3p ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-204-5p ; hsa-mir-211-5p ; hsa-mir-3691-3p ; hsa-mir-3163 ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-3606-3p ; hsa-mir-4282 ; hsa-mir-4778-5p ; hsa-mir-4279 ; hsa-mir-2355-5p ; hsa-mir-6778-3p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-122-3p ; hsa-mir-6793-3p ; hsa-mir-7157-5p ; hsa-mir-4310 ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-23b-5p ; hsa-mir-23a-5p ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-6747-3p ; hsa-mir-660-3p ; hsa-mir-939-3p ; hsa-mir-210-3p ; hsa-mir-1257 ; hsa-mir-6716-5p ; hsa-mir-15b-3p ; hsa-mir-2681-3p ; hsa-mir-7856-5p ; hsa-mir-3667-3p ; hsa-mir-6756-3p ; hsa-mir-3127-3p ; hsa-mir-6866-3p ; hsa-mir-188-5p ; hsa-mir-101-5p ; hsa-mir-125b-2-3p ; hsa-mir-29a-3p ; hsa-mir-29b-3p ; hsa-mir-29c-3p ; hsa-mir-6795-3p ; hsa-mir-6826-3p ; hsa-mir-6887-3p

Nearest miRNA

hsa-mir-128-1/Upstream/3682728; hsa-mir-10b/Downstream/5060865;

Nearest TSS

Nearest CpG islands

None/Target, chr2-CpG: 135/Upstream/331800, chr2-CpG: 127/Downstream/62473

Upstream sequence

TCTTAAGGGTCCTAGGATGTTGCTTGATGCAGTTCTTCAAAAGAAAAGAGGAGAGAAAGAGATTCTGCTTGTACCTCAATTGCCAAAACTTTTGTCCTAA

Downstream sequence

TTTCACAACTGTGAATGATATCGTTAATTTTTAACTTTTTTTATTTTTTGCATAGTAAAATGTTACACCAAAGAAATAATATATAAATACAGACATAATC