VISDB Viral Integration Site DataBase

VIS ID

TVIS10017582

Fusion event

HBV-GAPDH 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

pre-S1/pre-S2/S;Polymerase;

Start

793

Integrated sequence

TCAGTGGTTCGTAGGGCTTTCCCCCACTGTTTGGCTTTCAGTTATATGGATGATGTGGTATTGGGGGCCAAGTCTGTACAACATCTTGAATCCCTTTTTA| |CCGCTGTTACCAATTTTCTTTTGTCTTTGGGTATACATTTAAACCCTACTAAAACTAAACGTTGGGGCTACTCCCTTAACTTCATGGGATATGTAATTGG

Chromosome

chr12

Cytoband

p13.31

Reference genome

Start

End

6647091/6537925 (Hg38)

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/4877545; hsa-let-7i/Downstream/425774;

Nearest TSS

Nearest CpG islands

None/Target, chr12-CpG: 104/Upstream/2484, chr12-CpG: 21/Downstream/2586

Upstream sequence

TTCCCGGGAGACTGGAAAACCCGGGATGGAGTCAAAACTGGAGTTTGAAAAGAAAAACGGACAGCAGCACCTTCTTCCTCGCTACGCTTTTATAAGGATC

Downstream sequence

TACATAAAACAGGGGCTAGAAGAGGCATGCAACAAAGTGGTCTCTGGGTGATGTATCAAATACATGTTtatatatatatttatatattatatatatatat