VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10019363

Fusion event

HBV-RGS6 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

chr14

Cytoband

q24.2

Reference genome

GRCh37/hg19

Start

72783415/72316707 (Hg38)

End

72783415/72316707 (Hg38)

Location type

Intron2

Target gene

RGS6

miRNAs that regulate target gene

hsa-mir-6763-5p ; hsa-mir-3150a-3p ; hsa-mir-6727-5p ; hsa-mir-185-3p ; hsa-mir-6825-5p ; hsa-mir-939-5p ; hsa-mir-1343-5p ; hsa-mir-3175 ; hsa-mir-762 ; hsa-mir-4498 ; hsa-mir-5001-5p ; hsa-mir-4492 ; hsa-mir-8085 ; hsa-mir-6731-5p ; hsa-mir-5787 ; hsa-mir-4505 ; hsa-mir-4731-5p ; hsa-mir-4480 ; hsa-mir-8089 ; hsa-mir-4700-5p ; hsa-mir-4667-5p ; hsa-mir-6775-5p ; hsa-mir-4508 ; hsa-mir-5090 ; hsa-mir-3691-3p ; hsa-mir-6838-3p ; hsa-mir-6895-5p ; hsa-mir-5571-3p ; hsa-mir-3162-5p ; hsa-mir-7106-5p ; hsa-mir-1289 ; hsa-mir-765 ; hsa-mir-135a-3p ; hsa-mir-4756-5p ; hsa-mir-4739 ; hsa-mir-1321 ; hsa-mir-6760-5p ; hsa-mir-4747-3p ; hsa-mir-4446-5p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-642a-5p ; hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-938 ; hsa-mir-1233-3p ; hsa-mir-3182 ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-3192-5p ; hsa-mir-4646-5p ; hsa-mir-204-3p ; hsa-mir-877-3p ; hsa-mir-2276-5p ; hsa-mir-6892-3p ; hsa-mir-501-5p ; hsa-mir-129-2-3p ; hsa-mir-129-1-3p ; hsa-mir-500a-5p ; hsa-mir-629-3p ; hsa-mir-874-3p ; hsa-mir-3157-3p ; hsa-mir-4279 ; hsa-mir-6794-3p ; hsa-mir-513a-5p ; hsa-mir-4290 ; hsa-mir-130b-5p ; hsa-mir-205-5p ; hsa-mir-4639-3p ; hsa-mir-27a-3p ; hsa-mir-27b-3p ; hsa-mir-128-3p ; hsa-mir-216a-3p ; hsa-mir-3681-3p

Nearest miRNA

hsa-mir-208a/Upstream/4874777; hsa-mir-1185-1/Downstream/200113;

Nearest TSS

ENST00000550708/Upstream/351915; ENST00000553690/Downstream/35385;

Nearest CpG islands

None/Target, chr14-CpG: 35/Upstream/383870, chr14-CpG: 165/Downstream/575374

Upstream sequence

TTGTTAACATGAATGTGTCATTAAGAAGGAACATGTGAACTGGACGTTGGAGTACATGTAGAATTTGGACAGATGAAGATGGGATTGGGGTAGGAGTTTG

Downstream sequence

GCCATTGCATTCCTTATTACACAAGAATAATCATCTCTTATTGTATTCCAATCATTGATTGGCATTATTTTTTTTCTGCATAGCAAAATACATGGCCAAA

Reference

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