VISDB Viral Integration Site DataBase

VIS ID

TVIS10011606

Fusion event

HBV-RBM47 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

precore/core protein|Core and e antigen|Polymerase|

Start

2424

Orient

+

Integrated sequence

AACACTTCCGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGA| |AGATCTCAATCTCGGGAATCTCAATGTTAGTATTCCTTGGACTCATAAGGTGGGGAACTTTACTGGGCTTTATTCTTCTACTGTACCTGTCTTTAATCCT

Chromosome

chr4

Cytoband

p14

Reference genome

Start

End

40607909/40605892 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-1-3p ; hsa-mir-124-3p ; hsa-mir-335-5p ; hsa-mir-3658 ; hsa-mir-516b-5p ; hsa-mir-3191-5p ; hsa-mir-3653-3p ; hsa-mir-504-3p ; hsa-mir-298 ; hsa-mir-4670-3p ; hsa-mir-6824-3p ; hsa-mir-6764-3p ; hsa-mir-330-5p ; hsa-mir-326 ; hsa-mir-518c-5p ; hsa-mir-216b-5p ; hsa-mir-122-5p ; hsa-mir-627-3p ; hsa-mir-153-5p ; hsa-mir-1250-3p ; hsa-mir-382-3p ; hsa-mir-129-5p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6875-3p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-4778-3p ; hsa-mir-877-3p

Nearest miRNA

hsa-mir-12113/Upstream/103773; hsa-mir-1243/Downstream/7046777;

Nearest TSS

Nearest CpG islands

None/Target, chr4-CpG: 46/Upstream/167004, chr4-CpG: 66/Downstream/23831

Upstream sequence

TGTTCACAATATTTCTTAAAGAGGGAAAACATTCAAGGGAATGTGACATGTTGGTCATAGGAATTCACCCAATGGGAAATGTGTATATAATAAGAATGGC

Downstream sequence

agtaaatggattttagtaaaacaaaagtgagttgatttaaagaaaaatattacccagcactttgggaggctgaggcaggcggatcacttgaggtcaggaa