VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10017386

Fusion event

HBV-THRB 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

C

Reference genome

NC_003977

Start

1680

End

1769

Integrated sequence

AATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTT

Host Sequence

Chromosome

chr3

Cytoband

p24.2

Reference genome

GRCh37/hg19

Start

24270324/24228833 (Hg38)

End

24270422/24228931 (Hg38)

Location type

Intron

Fragile sites / regions

FRA3A

Target gene

THRB

miRNAs that regulate target gene

hsa-mir-27a-3p ; hsa-mir-204-5p ; hsa-mir-155-5p ; hsa-mir-425-5p ; hsa-mir-452-5p ; hsa-mir-4677-3p ; hsa-mir-4679 ; hsa-mir-3161 ; hsa-mir-3689f ; hsa-mir-3689e ; hsa-mir-3689b-5p ; hsa-mir-3689a-5p ; hsa-mir-3926 ; hsa-mir-4778-5p ; hsa-mir-4753-5p ; hsa-mir-6794-3p ; hsa-mir-3152-5p ; hsa-mir-6836-3p ; hsa-mir-15b-3p ; hsa-mir-4264 ; hsa-mir-4797-3p ; hsa-mir-6809-3p ; hsa-mir-4753-3p ; hsa-mir-4436b-5p ; hsa-mir-6509-3p ; hsa-mir-1236-3p ; hsa-mir-6515-3p ; hsa-mir-101-3p ; hsa-mir-200a-3p ; hsa-mir-1238-5p ; hsa-mir-129-5p ; hsa-mir-3659 ; hsa-mir-4658 ; hsa-mir-4758-5p ; hsa-mir-574-5p ; hsa-mir-6790-5p ; hsa-mir-8055 ; hsa-mir-8081 ; hsa-mir-1537-5p ; hsa-mir-320a ; hsa-mir-320b ; hsa-mir-320c ; hsa-mir-320d ; hsa-mir-3607-3p ; hsa-mir-4429 ; hsa-mir-4633-3p ; hsa-mir-4793-5p ; hsa-mir-5002-5p ; hsa-mir-5196-3p ; hsa-mir-6500-5p ; hsa-mir-6870-3p ; hsa-mir-6874-5p ; hsa-mir-9-3p

Nearest miRNA

hsa-mir-12127/Upstream/4091192; hsa-let-7g/Downstream/1435942;

Nearest TSS

ENST00000440867/Upstream/63238; ENST00000455576/Downstream/119971;

Nearest CpG islands

None/Target, chr3-CpG: 148/Upstream/282303, chr3-CpG: 135/Downstream/265422

Nearest cancer related gene

THRB(TSG, No orient, 0)

Upstream sequence

CCTCGAGCCTCAGATTGGAGGAGGTGGTGGCTGTGGCCACCACCACTTGAGTTCCGCCATGCCCGGACCTTGTCTTTTCCGTCCGACTTCCCTATGGAAC

Downstream sequence

AGATACCTGTCATACTGTTGGGAGTCATAGGTTAGTAATCATTCTGGATCCCTTTTTTCACTGACATCTCCTACAAGGAAAAAATACAAAAAAAATCACA

Target sequence

AACGGTTGCTAAAACTCGCAAGTTAATCTTTAAGAATCTATAATTTCACTCTAGGTGGAACAAAAATGGAGGCACACAAAGAAAATGTAAAAAAAAAA

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.