VISDB - VIS Detail

Basic Information

VIS ID

TVIS10009724

Fusion event

HBV-ERCC6L2 integration

Validated

Detection method

NGS

Data source

Curated

Sample type

Tumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2018

PubMed ID

30271481

Virus Sequence

Virus name

HBV

Reference genome

NC_003977

Region type

X protein|precore/core protein|

Start

1823

Orient

Integrated sequence

TTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACT| |TTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAA

Host Sequence

Chromosome

chr9

Cytoband

q22.32

Reference genome

GRCh37/hg19

Start

98724327/95962045 (Hg38)

End

98724327/95962045 (Hg38)

Orient

Location type

Intronic

Target gene

ERCC6L2

miRNAs that regulate target gene

hsa-mir-335-5p ; hsa-mir-3162-3p ; hsa-mir-6771-3p ; hsa-mir-6513-5p ; hsa-mir-887-5p ; hsa-mir-3913-5p ; hsa-mir-3122 ; hsa-mir-450a-1-3p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-7977 ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-7154-3p ; hsa-mir-5004-5p ; hsa-mir-383-3p ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-3714 ; hsa-mir-122-3p ; hsa-mir-1915-3p ; hsa-mir-1976 ; hsa-mir-2276-3p ; hsa-mir-3194-3p ; hsa-mir-3653-5p ; hsa-mir-4279 ; hsa-mir-4722-3p ; hsa-mir-4726-3p ; hsa-mir-5001-3p ; hsa-mir-6727-3p ; hsa-mir-6747-3p ; hsa-mir-6764-5p ; hsa-mir-6778-3p ; hsa-mir-6791-3p ; hsa-mir-6796-3p ; hsa-mir-6829-3p ; hsa-mir-6836-3p ; hsa-mir-6840-3p ; hsa-mir-6890-3p

Nearest miRNA

hsa-let-7a-1/Upstream/875951; hsa-mir-12126/Downstream/1401509;

Nearest TSS

ENST00000422679/Upstream/20541; ENST00000402838/Downstream/4605;

Nearest CpG islands

None/Target, chr9-CpG: 64/Upstream/85882, chr9-CpG: 122/Downstream/58889

Upstream sequence

TGCCTGGTAGGCAGAATAACTACCTTAATTTTTCAAGGTGATTAAGCTGATTAAGTAAGAACACTGTGATTCTTCATTCATTCGTCTTCACTTAACCAGA

Downstream sequence

tgggtgggaacacagccaaaccgtatcacctacaaaccaatgaaaagaataataggcatttcactgaattaaaaatgcaagtggttaacacatgtgaaaa

Reference

Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.