VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10019094

Fusion event

HBV-RBM27 integration

Validated

No

Detection method

VirusFinder

Data source

Curated

Sample type

Nontumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2012

PubMed ID

22634754

Virus Sequence

Virus name

HBV

Reference genome

NC_003977

Host Sequence

Chromosome

chr5

Cytoband

q32

Reference genome

GRCh37/hg19

Start

145646553/146266990 (Hg38)

End

145646553/146266990 (Hg38)

Location type

Intron14

Target gene

RBM27

miRNAs that regulate target gene

hsa-mir-1226-3p ; hsa-mir-186-5p ; hsa-mir-15b-5p ; hsa-mir-92a-3p ; hsa-mir-25-3p ; hsa-let-7a-2-3p ; hsa-mir-96-3p ; hsa-let-7g-3p ; hsa-mir-143-3p ; hsa-mir-576-3p ; hsa-mir-582-5p ; hsa-mir-2681-3p ; hsa-mir-4708-5p ; hsa-mir-4712-3p ; hsa-mir-4770 ; hsa-mir-1273f ; hsa-mir-6088 ; hsa-mir-6516-3p ; hsa-mir-142-3p ; hsa-mir-587 ; hsa-mir-1279 ; hsa-mir-889-3p ; hsa-mir-548p ; hsa-mir-3121-3p ; hsa-mir-3611 ; hsa-mir-92b-3p ; hsa-mir-367-3p ; hsa-mir-363-3p ; hsa-mir-32-5p ; hsa-mir-6809-3p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-4753-3p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-623 ; hsa-mir-197-3p ; hsa-mir-4473 ; hsa-mir-4671-3p ; hsa-mir-942-5p ; hsa-mir-130b-5p ; hsa-mir-6870-3p ; hsa-mir-5088-3p ; hsa-mir-1910-5p ; hsa-mir-125a-3p ; hsa-mir-500b-3p ; hsa-mir-454-3p ; hsa-mir-4295 ; hsa-mir-3666 ; hsa-mir-301b-3p ; hsa-mir-301a-3p ; hsa-mir-130b-3p ; hsa-mir-130a-3p ; hsa-mir-4482-5p ; hsa-mir-3130-5p ; hsa-mir-628-5p ; hsa-mir-137 ; hsa-mir-8075 ; hsa-mir-4772-5p ; hsa-mir-383-5p ; hsa-mir-5690

Nearest miRNA

hsa-mir-10397/Upstream/2587019; hsa-mir-103a-1/Downstream/2795323;

Nearest TSS

ENST00000502646/Upstream/5607; ENST00000646991/Downstream/71849;

Nearest CpG islands

None/Target, chr5-CpG: 87/Upstream/63042, chr5-CpG: 22/Downstream/67088

Upstream sequence

CCCAAGGTCCGTGTTGGCCCGCGCGGTGGCTGGGAGGCCCTCCCCACGCCCAACTGCGGGTATAAAGAGGCAGGCTGCGGACTCGGAGCAGCTCGGGGCT

Downstream sequence

TTCAGTTACTGGAAACAAGAGTTTTTATTTGGCACTTCACTTACGAAAAACAACTTGTGAAATACCCTCCAGCCAGATACCACCTGTAGCCAAACAAATT

Reference

Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.