RNF25 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006593
Fusion event
HBV-RNF25 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
1708
Integrated sequence
GGTCCGGCAGATGAGAAGGCACAGACGGGGAGTCCGCGTAAAGAGAGGTGCGCCCCGTGGTCGGTCGGAACGGCAGACGGAGAAGGGGACGAGAGAGTCC| |CAAGCGACCCCGAGAAGGGTCGTCCGCAGGATTCAGCGCCGACGGGACGTAAACAAAGGACGTCCCGCGCAGGATCCAGTTGGCAGCACAGCCTAGCAGC
Host Sequence
Chromosome
chr2
Cytoband
q35
Reference genome
GRCh38
Start
218668259 (Hg38)
End
218668259 (Hg38)
Location type
Exon
Target gene
RNF25
miRNAs that regulate target gene
hsa-mir-615-3p
Nearest miRNA
hsa-mir-10b/Upstream/265537; hsa-mir-1244-1/Downstream/154831;
Nearest TSS
ENST00000437798/Upstream/91; ENST00000468026/Downstream/3708;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/8405, chr2-CpG: 31/Downstream/3428
Downstream sequence
CCAGAGTGAAGCAGACATACTG
Junction sequence
nCCAGAGTGAAGCAGACATACTG
* 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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