VISDB Viral Integration Site DataBase

VIS ID

TVIS10012770

Fusion event

HBV-GAPDH 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

2687

Orient

-

Integrated sequence

CAGTTTGTAGGCCCACTCACAGTTAATGAGAAAAGAAGATTGCAATTGATTATGCCTGCCAGGTTTTATCCAAAGGTTACCAAATATTTACCATTGGATA| |AGGGTATTAAACCTTATTATCCAGAACATCTAGTTAATCATTACTTCCAAACTAGACACTATTTACACACTCTATGGAAGGCGGGTATATTATATAAGAG

Chromosome

chr12

Cytoband

p13.31

Reference genome

Start

End

6646142/6536976 (Hg38)

Orient

+

Location type

Exonic

Target gene

miRNAs that regulate target gene

hsa-mir-29c-3p ; hsa-mir-644a ; hsa-mir-1229-3p ; hsa-mir-877-3p ; hsa-mir-423-5p ; hsa-mir-342-5p ; hsa-mir-296-3p ; hsa-mir-106b-3p ; hsa-mir-29b-2-5p ; hsa-mir-766-3p ; hsa-mir-769-3p ; hsa-mir-615-3p ; hsa-mir-501-5p ; hsa-mir-484 ; hsa-mir-324-3p ; hsa-mir-331-3p ; hsa-mir-320a ; hsa-mir-149-5p ; hsa-mir-23b-3p ; hsa-mir-96-5p ; hsa-mir-93-5p ; hsa-mir-92a-3p ; hsa-mir-25-3p ; hsa-mir-17-3p ; hsa-mir-17-5p ; hsa-let-7b-5p ; hsa-mir-218-5p

Nearest miRNA

hsa-mir-3649/Upstream/4876596; hsa-let-7i/Downstream/426723;

Nearest TSS

Nearest CpG islands

None/Target, chr12-CpG: 104/Upstream/1535, chr12-CpG: 21/Downstream/3535

Upstream sequence

CCCTCAATATGGTCCTGTCCCCATCTCCCCCCCACCCCCATAGGCGAGATCCCTCCAAAATCAAGTGGGGCGATGCTGGCGCTGAGTACGTCGTGGAGTC

Downstream sequence

CACTGGCGTCTTCACCACCATGGAGAAGGCTGGGGTGAGTGCAGGAGGGCCCGCGGGAGGGGAAGCTGACTCAGCCCTGCAAAGGCAGGACCCGGGTTCA