VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10000470

Fusion event

HBV-MAP2K3 integration

Validated

Yes

Detection method

PCR and Sanger sequencing

Data source

Curated

Sample type

Tumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Perfect

Reported year

2016

PubMed ID

27703150

Virus Sequence

Virus name

HBV

Reference genome

AF090842.1;AB033554.1;AB014381.1;M32138.1;AB032431.1;AB036910.1;AB064310;AY090454.1

Host Sequence

Chromosome

chr17

Cytoband

p11.2

Reference genome

GRCh37/hg19

Start

21194918/21291606 (Hg38)

End

21194918/21291606 (Hg38)

Location type

Intronic

Target gene

MAP2K3

miRNAs that regulate target gene

hsa-mir-214-3p ; hsa-mir-20a-5p ; hsa-mir-124-3p ; hsa-mir-30a-5p ; hsa-mir-21-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-218-5p ; hsa-mir-1227-5p ; hsa-mir-128-1-5p ; hsa-mir-128-2-5p ; hsa-mir-1296-3p ; hsa-mir-15a-5p ; hsa-mir-15b-5p ; hsa-mir-16-5p ; hsa-mir-195-5p ; hsa-mir-28-5p ; hsa-mir-2861 ; hsa-mir-3139 ; hsa-mir-3151-5p ; hsa-mir-3619-5p ; hsa-mir-424-5p ; hsa-mir-4270 ; hsa-mir-4441 ; hsa-mir-4456 ; hsa-mir-4481 ; hsa-mir-4512 ; hsa-mir-4743-5p ; hsa-mir-4745-5p ; hsa-mir-497-5p ; hsa-mir-541-3p ; hsa-mir-5571-3p ; hsa-mir-6081 ; hsa-mir-6510-5p ; hsa-mir-654-5p ; hsa-mir-6731-5p ; hsa-mir-6742-5p ; hsa-mir-6754-5p ; hsa-mir-6760-5p ; hsa-mir-6762-5p ; hsa-mir-6769a-5p ; hsa-mir-6769b-5p ; hsa-mir-6781-5p ; hsa-mir-6838-5p ; hsa-mir-6845-5p ; hsa-mir-6877-5p ; hsa-mir-708-5p ; hsa-mir-761 ; hsa-mir-8085 ; hsa-mir-92a-2-5p

Nearest miRNA

hsa-mir-1180/Upstream/1947032; hsa-mir-10226/Downstream/6002304;

Nearest TSS

ENST00000595228/Upstream/137; ENST00000527123/Downstream/20081;

Nearest CpG islands

None/Target, chr17-CpG: 26/Upstream/6475, chr17-CpG: 47/Downstream/25073

Downstream sequence

CCCTGTCATGGCCTCTTAAAGCCTGAGCATGGGGCCTGCCCCACAGTGTGGGAGCCTGGGGCCAGAGTCCCACCGATCTGACCCCTTTTGTGCTGGGGATTTTGT

Junction sequence

GTCGGAACAGGGTTCACTGTTCCTGAACTGGAGCCACCAGCAGGGAAATACAGGCCTCTCACCCTGTCATGGCCTCTTAAAGCCTGAGCATGGGGCCTGCCCCACAGTGTGGGAGCCTGGGGCCAGAGTCCCACCGATCTGACCCCTTTTGTGCTGGGGATTTTGT

* Color: Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence

Reference

Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.