VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10017032

Fusion event

HBV-GPATCH8 integration

Validated

No

Detection method

Capture-NGS platform

Data source

Curated

Sample type

Tumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Good

Reported year

2019

PubMed ID

30070724

Virus Sequence

Virus name

HBV

Subtype

B

Reference genome

NC_003977

Start

1644

End

1735

Integrated sequence

CAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGG

Host Sequence

Chromosome

chr17

Cytoband

q21.31

Reference genome

GRCh37/hg19

Start

42501744/44424376 (Hg38)

End

42501844/44424476 (Hg38)

Location type

Exon

Target gene

GPATCH8

miRNAs that regulate target gene

hsa-mir-590-3p ; hsa-mir-130b-3p ; hsa-mir-148a-3p ; hsa-mir-19b-3p ; hsa-mir-302c-5p ; hsa-mir-655-3p ; hsa-mir-543 ; hsa-mir-3143 ; hsa-mir-374c-5p ; hsa-mir-3613-3p ; hsa-mir-552-5p ; hsa-mir-2053 ; hsa-mir-569 ; hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-6828-5p ; hsa-mir-1183 ; hsa-mir-8084 ; hsa-mir-4506 ; hsa-mir-15b-5p ; hsa-mir-16-5p ; hsa-mir-195-5p ; hsa-mir-424-5p ; hsa-mir-497-5p ; hsa-mir-15a-5p ; hsa-mir-6838-5p ; hsa-mir-200b-3p ; hsa-mir-200c-3p ; hsa-mir-429 ; hsa-mir-4257 ; hsa-mir-6847-5p ; hsa-mir-5582-5p ; hsa-mir-548an ; hsa-mir-124-3p ; hsa-mir-2355-3p ; hsa-mir-4646-3p ; hsa-mir-4433b-5p ; hsa-mir-7977 ; hsa-mir-4433a-5p ; hsa-mir-545-3p ; hsa-mir-4307 ; hsa-mir-548p ; hsa-mir-33a-3p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-19b-2-5p ; hsa-mir-19b-1-5p ; hsa-mir-19a-5p ; hsa-mir-223-3p ; hsa-mir-4328

Nearest miRNA

hsa-mir-1180/Upstream/216537; hsa-mir-10226/Downstream/510142;

Nearest TSS

ENST00000595228/Upstream/34871; ENST00000315323/Downstream/12311;

Nearest CpG islands

None/Target, chr17-CpG: 26/Upstream/38165, chr17-CpG: 72/Downstream/78533

Upstream sequence

ctaacatcatttggctgaggtttaaacaagGGAGCAGCATCTGCACAAGGTGAGCACTCATCAGTGTTCATAGCAATGATTCCTGCTGAAGGTATCCTGT

Downstream sequence

CTTTGTCAACATAATCCTTCAAGACCCATGAAATACAAAGAAACAAAAAATGAACTTGGTAAAACTTTAAGTGAATGTTATAGAGAAAACAGTCTATCTG

Target sequence

ATATGGTTATCAAATTCCTGATGTTTCTGATATTGCTTATCACACAGTTCACAATAAAAGTTGGCTCTGAGGTCTTCCAAGGCTTTGGCAATTGCCTTCT

Reference

Li, C. L., et al.Androgen Receptor Enhances Hepatic Telomerase Reverse Transcriptase Gene Transcription After Hepatitis B Virus Integration or Point Mutation in Promoter Region. Hepatology,2019, 69(2): 498-512.