VISDB Viral Integration Site DataBase

VIS ID

TVIS10014590

Fusion event

HBV-RAB5C 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

1104

Orient

+

Integrated sequence

GGTCTTTTGGGTTTTGCTGCCCCTTTTACACAATGTGGTTATCCTGCGTTGATGCCTTTGTATGCATGTATTCAATCTAAGCAGGCTTTCACTTTCTCGC| |CAACTTACAAGGCCTTTCTGTGTAAACAATACCTGAACCTTTACCCCGTTGCCCGGCAACGGCCAGGTCTGTGCCAAGTGTTTGCTGACGCAACCCCCAC

Chromosome

chr17

Cytoband

q21.2

Reference genome

Start

End

40297496/42145478 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-155-5p ; hsa-mir-193b-3p ; hsa-mir-149-5p ; hsa-mir-221-3p ; hsa-mir-100-5p ; hsa-let-7c-3p ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-892c-5p ; hsa-let-7g-3p ; hsa-let-7a-2-3p ; hsa-mir-613 ; hsa-mir-206 ; hsa-mir-1-3p ; hsa-mir-657 ; hsa-mir-6730-5p ; hsa-mir-3665 ; hsa-mir-3680-5p ; hsa-mir-493-5p ; hsa-mir-18a-5p ; hsa-mir-4735-3p ; hsa-mir-18b-5p ; hsa-mir-4452 ; hsa-mir-183-3p ; hsa-mir-8087 ; hsa-mir-4282 ; hsa-mir-4432 ; hsa-mir-208a-3p ; hsa-mir-208b-3p ; hsa-mir-499a-5p ; hsa-mir-6820-3p ; hsa-mir-3164 ; hsa-mir-483-3p ; hsa-mir-656-3p ; hsa-mir-5694 ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-2278 ; hsa-mir-298 ; hsa-mir-4468 ; hsa-mir-4706 ; hsa-mir-4747-5p ; hsa-mir-4795-5p ; hsa-mir-5196-5p ; hsa-mir-5681a ; hsa-mir-6077 ; hsa-mir-6825-5p ; hsa-mir-7106-5p ; hsa-mir-766-5p ; hsa-mir-936 ; hsa-mir-1204 ; hsa-mir-133a-3p ; hsa-mir-133b ; hsa-mir-1914-3p ; hsa-mir-23a-5p ; hsa-mir-23b-5p ; hsa-mir-24-3p ; hsa-mir-29c-5p ; hsa-mir-3170 ; hsa-mir-342-5p ; hsa-mir-363-5p ; hsa-mir-3677-3p ; hsa-mir-377-5p ; hsa-mir-4257 ; hsa-mir-4265 ; hsa-mir-4296 ; hsa-mir-4322 ; hsa-mir-433-3p ; hsa-mir-4417 ; hsa-mir-4437 ; hsa-mir-4506 ; hsa-mir-4651 ; hsa-mir-4664-5p ; hsa-mir-4687-3p ; hsa-mir-4773 ; hsa-mir-5002-5p ; hsa-mir-5088-5p ; hsa-mir-5194 ; hsa-mir-5572 ; hsa-mir-5587-5p ; hsa-mir-589-3p ; hsa-mir-6086 ; hsa-mir-608 ; hsa-mir-6501-3p ; hsa-mir-6515-5p ; hsa-mir-6737-5p ; hsa-mir-6738-5p ; hsa-mir-6745 ; hsa-mir-6747-5p ; hsa-mir-6759-5p ; hsa-mir-6773-3p ; hsa-mir-6796-5p ; hsa-mir-6801-5p ; hsa-mir-6804-5p ; hsa-mir-6812-5p ; hsa-mir-6819-5p ; hsa-mir-6855-5p ; hsa-mir-6880-5p ; hsa-mir-7847-3p ; hsa-mir-7974

Nearest miRNA

hsa-mir-1180/Upstream/628261; hsa-mir-10226/Downstream/349295;

Nearest TSS

Nearest CpG islands

None/Target, chr17-CpG: 26/Upstream/22136, chr17-CpG: 40/Downstream/9413

Upstream sequence

gttgacatcagtcatggaaaggcttgtggattgtatgtacccttgacatgatgtgatgaaaatagcactttacctctctggtcctccttcccaaaacttg

Downstream sequence

gcacagtctacttatgaaaaaaacactggacacagccaggcgtgttagctcacgcatgtaatcccaccactttgggaagctgaggtgagcagatcgcttg