VISDB Viral Integration Site DataBase

VIS ID

TVIS10012352

Fusion event

HBV-SAMD12 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

X protein|

Start

1799

Orient

-

Integrated sequence

GAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGG| |TCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGG

Chromosome

chr8

Cytoband

q24.11

Reference genome

Start

End

119297052/118284813 (Hg38)

Orient

-

Location type

Intronic

Fragile sites / regions

FRA8C ; FRA8E

Target gene

miRNAs that regulate target gene

hsa-mir-340-5p ; hsa-mir-93-5p ; hsa-mir-526b-5p ; hsa-mir-570-3p ; hsa-mir-4635 ; hsa-mir-5584-3p ; hsa-mir-3976 ; hsa-mir-6856-5p ; hsa-mir-6758-5p ; hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-4520-2-3p ; hsa-mir-7156-5p ; hsa-mir-4273 ; hsa-mir-4520-3p ; hsa-mir-3144-3p ; hsa-mir-2117 ; hsa-mir-4720-3p ; hsa-mir-4804-3p ; hsa-mir-4645-3p ; hsa-mir-571 ; hsa-mir-6782-3p ; hsa-mir-875-5p ; hsa-mir-4796-3p ; hsa-mir-3609 ; hsa-mir-548ah-5p ; hsa-mir-144-3p ; hsa-mir-5590-3p ; hsa-mir-142-5p ; hsa-mir-519d-3p ; hsa-mir-106a-5p ; hsa-mir-106b-5p ; hsa-mir-17-5p ; hsa-mir-526b-3p ; hsa-mir-20a-5p ; hsa-mir-20b-5p ; hsa-mir-302e ; hsa-mir-302a-3p ; hsa-mir-302b-3p ; hsa-mir-302c-3p ; hsa-mir-302d-3p ; hsa-mir-520d-3p ; hsa-mir-520c-3p ; hsa-mir-520a-3p ; hsa-mir-520b ; hsa-mir-520e ; hsa-mir-373-3p ; hsa-mir-372-3p ; hsa-mir-520f-3p ; hsa-mir-7850-5p ; hsa-mir-4529-3p ; hsa-mir-4535 ; hsa-mir-4776-5p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-664b-3p ; hsa-mir-579-3p ; hsa-mir-659-5p ; hsa-mir-492 ; hsa-mir-6861-3p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-3667-3p ; hsa-mir-6832-3p ; hsa-mir-6756-3p ; hsa-mir-4693-3p ; hsa-mir-539-5p ; hsa-mir-548n ; hsa-mir-5586-3p

Nearest miRNA

hsa-mir-12123/Upstream/1410013; hsa-mir-10400/Downstream/1040358;

Nearest TSS

Nearest CpG islands

None/Target, chr8-CpG: 109/Upstream/172589, chr8-CpG: 34/Downstream/336874

Upstream sequence

TCGCTGCTGAAATCTGATCAGATGTTATTGATGAATCATGGAATTCCAGAGTTAGGAGCTGGAAAGAAGGTCAAGAGGACATCTGAGTCAGTGTCTGACT

Downstream sequence

cgcccgcagtcccagctactcgggaggctgaggcaggagaatggtgtgtacccaggaggcggagcttgcagtgagcagacatggcaccactgcaccccag