VISDB Viral Integration Site DataBase

VIS ID

TVIS10015085

Fusion event

HBV-SPTLC3 integration

Validated

No

Detection method

WGS

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2012

PubMed ID

Virus name

HBV

Reference genome

Region type

HBVgp1 Polymerase;HBVgp4 precore/core protein

Start

2325

Orient

+

Integrated sequence

CACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGACCACCAAATGCCCCTATCCTATCA| |ACACTTCCGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAA

Chromosome

chr20

Cytoband

p12.1

Reference genome

Start

End

13094189/13113542 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-21-5p ; hsa-mir-8064 ; hsa-mir-4643 ; hsa-mir-8485 ; hsa-mir-642b-3p ; hsa-mir-642a-3p ; hsa-mir-662 ; hsa-mir-7977 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-564 ; hsa-mir-4650-5p ; hsa-mir-1972 ; hsa-mir-383-3p ; hsa-mir-506-5p ; hsa-mir-4262 ; hsa-mir-181d-5p ; hsa-mir-181c-5p ; hsa-mir-181b-5p ; hsa-mir-181a-5p ; hsa-mir-544a ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-891b ; hsa-mir-8082 ; hsa-mir-4534 ; hsa-mir-2276-3p ; hsa-mir-4772-3p ; hsa-mir-6514-5p ; hsa-mir-613 ; hsa-mir-206 ; hsa-mir-1-3p ; hsa-mir-106a-3p ; hsa-mir-1247-3p ; hsa-mir-3689d ; hsa-mir-377-5p ; hsa-mir-4537 ; hsa-mir-4684-3p ; hsa-mir-6086 ; hsa-mir-6134 ; hsa-mir-6799-5p ; hsa-mir-6851-5p ; hsa-mir-6880-5p ; hsa-mir-7161-3p ; hsa-mir-7847-3p

Nearest miRNA

hsa-mir-103a-2/Upstream/2463847; hsa-mir-1-1/Downstream/5357073;

Nearest TSS

Nearest CpG islands

None/Target, chr20-CpG: 39/Upstream/1221983, chr20-CpG: 217/Downstream/106481

Upstream sequence

AGAGAGCAGTCAGCCAAATCAGAAAGTTTCAGGGAGATATCAAGATAGAAAAGGCTAGATACCCAGTCTGAGAAGTCAGACAACTCCACAAAACTAATAA

Downstream sequence

TAATAATGTCACCATTCATAGGTATTATTATTCATATgtagaatatagaggagtcaggatttggaggcaggcctgggacctaggttcaaatcctggcatc