GDPD4 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10020327
Fusion event
HBV-GDPD4 integration
Validated
No
Detection method
VirusScan
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2016
PubMed ID
27339696
Virus Sequence
Virus name
HBV
Reference genome
NC_003977.1
Start
1426
End
2522
Orient
+
Integrated sequence
ACGTCCCGTCGGCGCTGAATCCCGCGGACGACCCGTCTCGGGGCCGTTTGGGCCTCTACCGTCCCCTTCTTCATCTGCCGTTCCGGCCGACCACGGGGCGCACCTCTCTTTACGCGGTCTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTAGCATGGAGACCACCGTGAACGCCCACCAGGTCTTGCCCAAGGTCTTACACAAGAGGACTCTTGGACTCTCAGCAAT
Host Sequence
Chromosome
chr11
Cytoband
q13.5
Reference genome
GRCh37/hg19
Start
76972284/77261239 (Hg38)
End
76973332/77262287 (Hg38)
Orient
+
Location type
Intronic
Target gene
GDPD4
Nearest miRNA
hsa-mir-10392/Upstream/1926053; hsa-let-7a-2/Downstream/2139735;
Nearest TSS
ENST00000527297/Upstream/36937; ENST00000598970/Downstream/25131;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/81299, chr11-CpG: 33/Downstream/149404
Upstream sequence
TGCTGCTAATTATGATTGTGACTACCATCATCCAGCAGCTGTGAAGTAGAGTGCCAAGTACCTCTTCTGTAGCATCTGTCTCTCTTTTTGAAGGAGGGGG
Downstream sequence
TTGACCCCTGTCAGCAGGAAATCAGCCAAAGCAGTCATGGCCCAATTCCTCCTTAATGATCACACTTCAGGACTGAGGGATAAAGAAGATAAGGGGGTAC
Target sequence
tctttttttttttttggaaacagaatcttactctgtcacccaggctggagtgtagcggtgccatctcagttcactgcaacctccgcctcccaggttcaagtgattctcctgcctcagcctcccgagtagctgggattacaggtgcccaccaccacgcccagctaatttttctatttttagtagagatggggtttcaccatgttggccaggctggtctcgaactcctgacctcaggtgatctccctgcctcggcct
Reference
Cao, S., et al.Divergent viral presentation among human tumors and adjacent normal tissues. Sci Rep,2016, 6: 28294.
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