hsa-mir-130b-3p _LIHC.png
GOPC _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018534
Fusion event
HBV-GOPC integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
423
End
522
Integrated sequence
TGCCTCATCTTCTTGTTGGTTCTTCTGGACTATCAAGGTATGTTGCCCGTTTGTCCTCTAATTCCAGGATCCTCAACAACCAGCACGGGACCATGCCGGA
Host Sequence
Chromosome
chr6
Cytoband
q22.1
Reference genome
GRCh37.55
Start
117896338/117575175 (Hg38)
End
117896515/117575352 (Hg38)
Location type
Exon6
Target gene
GOPC
miRNAs that regulate target gene
hsa-mir-130b-3p ; hsa-mir-103a-3p
Nearest miRNA
hsa-mir-10398/Upstream/10790955; hsa-mir-1202/Downstream/1493695;
Nearest TSS
ENST00000381078/Upstream/1604; ENST00000368494/Downstream/27012;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/26808, chr6-CpG: 55/Downstream/26841
Nearest cancer related gene
GOPC(OG, No orient, 0)
Upstream sequence
TTTGGTAGACACAGGCATTGGCATGACCAAAGCTGATCTCATAAATAATTTGGGAACCATTGCCAAGTCTGGTACTAAAGCATTCATGGAGGCTCTTCAG
Downstream sequence
CTATGTAATTTTTAAAAGCATATAATTTAATGAAAATAAAAACTCTTTAGCACTAGACCATGTTCCTGAAAATGCACAAAAGCCTACAGTTCAACAATGT
Target sequence
CCTTCCTGCCAGTTCCTTATCCAAGTACTTGGCAGCTAGTCTCGCCCCATATACTTCAGCCTGGAGAACAGCTATATGTCTACGAAGGGCTTCATTCTCTTTTCTCAACAATTTCACTTCAGCTTCAAGTTGTGCTTCTTTCATTTTTTCTTTTTTGTTTGCCTCAAGCTCTCTTTC
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.
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