VISDB Viral Integration Site DataBase

VIS ID

TVIS10016125

Fusion event

HBV-SRGAP1 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

Start

1681

Orient

-

Integrated sequence

CCTGCTCGTGTTACAGGCGGGGTTTTTCTTGTTGACAAAAATCCTCACAATACCACAGAGTCTAGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGA| |ACACCCGTGTGTCTTGGCCAAAATTCGCAGTCCCAAATCTCCAGTCACTCACCAACTTGTTGTCCTCCAATTTGTCCTGGTTATCGCTGGATGTGTCTGC

Chromosome

chr12

Cytoband

q14.2

Reference genome

Start

End

64264301/63870521 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-145-5p ; hsa-mir-214-3p ; hsa-mir-335-5p ; hsa-mir-1-3p ; hsa-mir-744-5p ; hsa-mir-92b-5p ; hsa-mir-181a-5p ; hsa-mir-1273e ; hsa-mir-6811-5p ; hsa-mir-6511b-5p ; hsa-mir-6722-3p ; hsa-mir-1909-3p ; hsa-mir-6836-5p ; hsa-mir-6132 ; hsa-mir-8082 ; hsa-mir-6086 ; hsa-mir-4534 ; hsa-mir-377-5p ; hsa-mir-219b-3p ; hsa-mir-3664-3p ; hsa-mir-6746-5p ; hsa-mir-1247-3p ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-4802-5p ; hsa-mir-510-5p ; hsa-mir-512-5p ; hsa-mir-302f ; hsa-mir-1273f ; hsa-mir-4768-3p ; hsa-mir-6851-5p ; hsa-mir-3689d ; hsa-mir-7856-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-8074 ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-1250-3p ; hsa-mir-1306-5p ; hsa-mir-3161 ; hsa-mir-7843-3p ; hsa-mir-203a-3p ; hsa-mir-4448 ; hsa-mir-4786-3p ; hsa-mir-4293 ; hsa-mir-6796-3p ; hsa-mir-99b-3p ; hsa-mir-99a-3p

Nearest miRNA

hsa-let-7i/Upstream/46794; hsa-mir-1178/Downstream/751988;

Nearest TSS

Nearest CpG islands

None/Target, chr12-CpG: 104/Upstream/25900, chr12-CpG: 54/Downstream/351523

Nearby gene

RXYLT1(-61414) ; C12orf66(+322117) ;

Upstream sequence

CCATTTGTGGGTTAAGAAGCTAAAGCTCTGTTTTTCTTTAagacaagtgcagtagtgagaagtggggaagagtagaacaaggagttcgatctgtaattca

Downstream sequence

ttagtcacatggccaattatatgcttatgtaataaataccttgaataaaaactatggacatgagctcgggtgcggtggcccatgcctgtaatcccagcac