VISDB Viral Integration Site DataBase

VIS ID

TVIS10011937

Fusion event

HBV-SAMD5 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

1762

Orient

-

Integrated sequence

GACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTA| |AAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTAC

Chromosome

chr6

Cytoband

q24.3

Reference genome

Start

End

148134911/147813775 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-21-5p ; hsa-mir-145-5p ; hsa-mir-498 ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-23b-5p ; hsa-mir-23a-5p ; hsa-mir-4695-3p ; hsa-mir-6787-3p ; hsa-mir-1304-3p ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-939-3p ; hsa-mir-660-3p ; hsa-mir-6736-3p ; hsa-mir-6890-3p ; hsa-mir-1306-5p ; hsa-mir-4503 ; hsa-mir-6832-3p ; hsa-mir-153-5p ; hsa-mir-6512-5p ; hsa-mir-7109-3p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-3688-3p ; hsa-mir-4443 ; hsa-mir-7977 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-650 ; hsa-mir-3612 ; hsa-mir-4738-5p ; hsa-mir-1243 ; hsa-mir-3654 ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-4693-3p ; hsa-mir-3121-5p ; hsa-mir-3190-5p ; hsa-mir-3675-3p ; hsa-mir-3926 ; hsa-mir-4684-5p ; hsa-mir-548aa ; hsa-mir-548ap-3p ; hsa-mir-548as-3p ; hsa-mir-548at-3p ; hsa-mir-548ay-3p ; hsa-mir-548t-3p ; hsa-mir-6771-3p

Nearest miRNA

hsa-mir-10398/Upstream/7129892; hsa-mir-1202/Downstream/3288900;

Nearest TSS

Nearest CpG islands

None/Target, chr6-CpG: 120/Upstream/304349, chr6-CpG: 79/Downstream/528514

Nearby gene

SAMD5(-243754) ; SASH1(+528818) ;

Upstream sequence

TAATTACATTTTGCCATTTGGGATTTTTAGACATACAACAATCATAGCTCTTCTCTGGCTATTAGTCTAAGAAGATTGCATTCATTATAAAAATAATCCG

Downstream sequence

AATGGCAGGAGTAACTCTTTGGACTGAGTACCTGTGATTTCCAAGGGGAAGCTCATGGTTGCAGATCCATGTCTATATTTTAATTGTGAAGGCTATGGGA