VISDB Viral Integration Site DataBase

VIS ID

TVIS10015083

Fusion event

HBV-SPTLC3 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

Region type

HBVgp1 Polymerase

Start

2486

Orient

-

Integrated sequence

CGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTATTCCTTGGACTCATAAGGTGGGGAACTTTA| |CTGGGCTTTATTCTTCTACTGTACCTGTCTTTAATCCTCATTGGAAAACACCATCTTTTCCTAATATACATTTACACCAAGACATTATCAAAAAATGTGA

Chromosome

chr20

Cytoband

p12.1

Reference genome

Start

End

13088153/13107506 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-21-5p ; hsa-mir-8064 ; hsa-mir-4643 ; hsa-mir-8485 ; hsa-mir-642b-3p ; hsa-mir-642a-3p ; hsa-mir-662 ; hsa-mir-7977 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-564 ; hsa-mir-4650-5p ; hsa-mir-1972 ; hsa-mir-383-3p ; hsa-mir-506-5p ; hsa-mir-4262 ; hsa-mir-181d-5p ; hsa-mir-181c-5p ; hsa-mir-181b-5p ; hsa-mir-181a-5p ; hsa-mir-544a ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-891b ; hsa-mir-8082 ; hsa-mir-4534 ; hsa-mir-2276-3p ; hsa-mir-4772-3p ; hsa-mir-6514-5p ; hsa-mir-613 ; hsa-mir-206 ; hsa-mir-1-3p ; hsa-mir-106a-3p ; hsa-mir-1247-3p ; hsa-mir-3689d ; hsa-mir-377-5p ; hsa-mir-4537 ; hsa-mir-4684-3p ; hsa-mir-6086 ; hsa-mir-6134 ; hsa-mir-6799-5p ; hsa-mir-6851-5p ; hsa-mir-6880-5p ; hsa-mir-7161-3p ; hsa-mir-7847-3p

Nearest miRNA

hsa-mir-103a-2/Upstream/2457811; hsa-mir-1-1/Downstream/5363109;

Nearest TSS

Nearest CpG islands

None/Target, chr20-CpG: 39/Upstream/1215947, chr20-CpG: 217/Downstream/112517

Upstream sequence

tggtgtccagatggcagagggaagaagcttaaaagataagtgtgtgttgaattgtgtcaaatgctgcccacggtcaagtagaacaagaactgaAGAAAGC

Downstream sequence

TCTGTAAATTTGTCAATTAGGTAATATTATGTGAAAAGAACACAATAGTGATGCCAGGATATCAGGAGGCCTGTTTTGCAGATAAAAAGAGAAAAAAACA