HERC5 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006764
Fusion event
HBV-HERC5 integration
Validated
Yes
Detection method
invPCR +Sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2016
PubMed ID
27453547
Virus Sequence
Virus name
HBV
Reference genome
V01460.1
Start
1828
Integrated sequence
CGTCCGCAGGATTCAGCGCCGACGGGACGTAAACAAAGGACGTCCCGCGCAGGATCCAGTTGGCAGCACAGCCTAGCAGCCATGGAAACGATGTATATTT| |GCGGGATAGGACAACAGAGTTATCAGTCCCGATAATGTTTGCTCCAGACCTGCTGCGAGCAAAACAAGCGGCTAGGAGTTCCGCAGTATGGATCGGCAGA
Host Sequence
Chromosome
chr4
Cytoband
q22.1
Reference genome
GRCh38
Start
88503047 (Hg38)
End
88503047 (Hg38)
Location type
Intron
Fragile sites / regions
FRA4E
Target gene
HERC5
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-3529-3p
Nearest miRNA
hsa-mir-12113/Upstream/1202464; hsa-mir-1243/Downstream/10494340;
Nearest TSS
ENST00000502981/Upstream/30034; ENST00000597259/Downstream/18742;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/45250, chr4-CpG: 69/Downstream/20209
Downstream sequence
GTTTTTCTGTTTTCTATTTTAT
Junction sequence
CAGCACCATGCAACTTTTTCGTTTTTCTGTTTTCTATTTTAT
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Mason, W. S., et al. HBV DNA Integration and Clonal Hepatocyte Expansion in Chronic Hepatitis B Patients Considered Immune Tolerant. Gastroenterology,2016, 151(5): 986-998 e984.
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