Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015088
Fusion event
HBV-ARHGEF10L integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
HBVgp3 X protein
Start
1665
Orient
+
Integrated sequence
CATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAAATATTGCCCAAGGTCTTACATAAGAGGAC| |TCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAG
Host Sequence
Chromosome
chr1
Cytoband
p36.13
Reference genome
Start
End
17842436/17515940 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-12136/Upstream/237965; hsa-mir-101-1/Downstream/1367262;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/75959, chr1-CpG: 100/Downstream/23494
Nearby gene
ARHGEF10L(No orient, 23893)
Upstream sequence
catgtggcccagcctggtcttgaactcctggactcaagagatctgcccgcctgagtcaaatgctgggattacaagtgtgagccactgcacctgcccAGAT
Downstream sequence
ACTGCTTCTAAATCAAAGTTGAGCCTCAGTTAATGGTGAGCCCAGCATGGTACTGCTTTGAGGCCCTGTACAGATGGCAGAGAAGACTAACGGCTTGGTG
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.