Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008732
Fusion event
HBV-STX3 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
S protein|Polymerase|large S protein|middle S protein|
Start
689
Orient
+
Integrated sequence
GAAATTGCACCTGTATTCCCATCCCATCATCCTGGGCTTTCGGAAAATTCCTATGGGAGTGGGCCTCAGCCCGTTTCTCCTGGCTCAGTTTACTAGTGCC| |ATTTGTTCAGTGGTTCGTAGGGCTTTCCCCCACTGTTTGGCTTTCAGTTATATGGATGATGTGGTATTGGGGGCCAAGTCTGTACAGCATCTTGAGTCCC
Host Sequence
Chromosome
chr11
Cytoband
q12.1
Reference genome
Start
End
59526363/59758890 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-92a-3p ; hsa-let-7a-5p ; hsa-let-7b-5p ; hsa-let-7c-5p ; hsa-let-7d-5p ; hsa-let-7e-5p ; hsa-let-7f-5p ; hsa-let-7g-5p ; hsa-let-7i-5p ; hsa-mir-125b-2-3p ; hsa-mir-1273h-5p ; hsa-mir-202-3p ; hsa-mir-3065-3p ; hsa-mir-30b-3p ; hsa-mir-30c-1-3p ; hsa-mir-30c-2-3p ; hsa-mir-3120-3p ; hsa-mir-3145-5p ; hsa-mir-3189-3p ; hsa-mir-335-5p ; hsa-mir-342-3p ; hsa-mir-3689a-3p ; hsa-mir-3689b-3p ; hsa-mir-3689c ; hsa-mir-3927-3p ; hsa-mir-4457 ; hsa-mir-4458 ; hsa-mir-4500 ; hsa-mir-4650-3p ; hsa-mir-5007-5p ; hsa-mir-508-5p ; hsa-mir-513b-5p ; hsa-mir-5192 ; hsa-mir-519a-3p ; hsa-mir-519b-3p ; hsa-mir-519c-3p ; hsa-mir-6731-5p ; hsa-mir-6779-5p ; hsa-mir-6780a-5p ; hsa-mir-6788-5p ; hsa-mir-6813-3p ; hsa-mir-6814-5p ; hsa-mir-6831-5p ; hsa-mir-6878-5p ; hsa-mir-8085 ; hsa-mir-887-5p ; hsa-mir-98-5p
Nearest miRNA
hsa-mir-129-2/Upstream/163732; hsa-let-7a-2/Downstream/450181;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/3236, chr11-CpG: 32/Downstream/51727
Upstream sequence
ATGCTTTTGCATGGCCCTGTTttcattcagcaaacatttgctgagtactgagtacccactgtgtgccagtccttgtactagatgctggagtgtaatggtg
Downstream sequence
ataaacgcatgttcctggcccttagaaagttcatggtcaggtaggaagaaacagaagaaatagacaTGAGGATATCATCCTTGTGATAGAAGCAACCACA
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.