TSPAN12 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10007679
Fusion event
HBV-TSPAN12 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
Polymerase|large S protein|
Start
3172
Orient
+
Integrated sequence
AAACTTTGCCAGCAAATCCGCCTCCTGCCTCCACCAATCGCCAGTCAGGAAGGCAGCCTACCCCGCTGTCTCCACCTTTGAGAAACACTCATCCTCAGGC| |CATGCAGTGG
Host Sequence
Chromosome
chr7
Cytoband
q31.31
Reference genome
GRCh37/hg19
Start
120461533/120821479 (Hg38)
End
120461533/120821479 (Hg38)
Orient
+
Location type
Intronic
Target gene
TSPAN12
miRNAs that regulate target gene
hsa-mir-196a-5p ; hsa-mir-101-3p ; hsa-mir-26b-5p ; hsa-mir-1305 ; hsa-mir-607 ; hsa-mir-4460 ; hsa-mir-4727-3p ; hsa-mir-4698 ; hsa-mir-8063 ; hsa-mir-6718-5p ; hsa-mir-203b-5p ; hsa-mir-212-3p ; hsa-mir-132-3p ; hsa-mir-5692a ; hsa-mir-140-5p
Nearest miRNA
hsa-mir-10525/Upstream/3801160; hsa-mir-10399/Downstream/6236609;
Nearest TSS
ENST00000635602/Upstream/68965; ENST00000445699/Downstream/17318;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/546048, chr7-CpG: 83/Downstream/35587
Upstream sequence
TGAGTCAgaggccattttaaacagcgaaatcaccaagaaaaagcacaagaatgtgaaaaacatggcactaattaaatagactgcaaagtggataccagtt
Downstream sequence
aatagacctggcttcagattttggctacttgacatatccattggctagtcttgggcaaaccactacacctcagtttcttcatttgtaaagtgagaatgtt
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.
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