VISDB Viral Integration Site DataBase

VIS ID

TVIS10017583

Fusion event

HBV-SMARCD1 integration

Validated

No

Detection method

TS

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2016

PubMed ID

Virus name

HBV

Subtype

C

Reference genome

Region type

X protein;Polymerase;

Start

1546

Integrated sequence

CCCGCGGACGACCCGTCTCGGGGCCGTTTGGGACTCTACCGTCCCCTTCTTCGTCTGCCGTTCCGGCCGACCACGGGGCGCACCTCTCTTTACGCGGTCT| |CCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCGACAGGTCTTGCCCAAG

Chromosome

chr12

Cytoband

q13.12

Reference genome

Start

End

50482505/50088722 (Hg38)

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-7-5p ; hsa-mir-101-3p ; hsa-let-7b-5p ; hsa-mir-744-5p ; hsa-mir-425-5p ; hsa-let-7c-5p ; hsa-mir-223-3p ; hsa-mir-490-3p ; hsa-mir-940 ; hsa-mir-1827 ; hsa-mir-6808-5p ; hsa-mir-6893-5p ; hsa-mir-619-3p ; hsa-mir-3185 ; hsa-mir-8066 ; hsa-mir-6516-5p ; hsa-mir-455-3p ; hsa-mir-6807-5p ; hsa-mir-650 ; hsa-mir-3612 ; hsa-mir-4327 ; hsa-mir-6499-3p ; hsa-mir-6840-3p ; hsa-mir-665 ; hsa-mir-4459 ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-4695-5p ; hsa-mir-1294 ; hsa-mir-4316 ; hsa-mir-6077 ; hsa-mir-3188 ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-2467-5p ; hsa-mir-3975 ; hsa-mir-4719 ; hsa-mir-9500 ; hsa-mir-6873-5p ; hsa-mir-3175 ; hsa-mir-3179 ; hsa-mir-3202 ; hsa-mir-4271 ; hsa-mir-4476 ; hsa-mir-4725-3p ; hsa-mir-483-5p ; hsa-mir-6777-5p ; hsa-mir-6780b-5p ; hsa-mir-6783-5p ; hsa-mir-6876-5p ; hsa-mir-6878-5p ; hsa-mir-6889-5p ; hsa-mir-873-5p

Nearest miRNA

hsa-mir-1244-3/Upstream/1316685; hsa-let-7i/Downstream/145420;

Nearest TSS

Nearest CpG islands

None/Target, chr12-CpG: 104/Upstream/3176, chr12-CpG: 67/Downstream/22875

Upstream sequence

TGCTCTCACCTTTCTTCACAGCTTCCTCATTAAGTGACTTGAGTACTTCCTTCCTCTTGTCCTGGTTACCTGCCAGGGCAAAAGCATAGGCCAGCAGTGC

Downstream sequence

TTTGGTATATACATGGCTGCCATGGTCCCCTTCTTGTGCTGTCTTCCAGGCTGACTCCAGGCAAAACAGGGCATTGCGGACAACAGGGTGCTGTGAAGGC