Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10011598
Fusion event
HBV-SLC10A7 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
precore/core protein|
Start
1848
Orient
+
Integrated sequence
AGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCT| |TGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTAC
Host Sequence
Chromosome
chr4
Cytoband
q31.22
Reference genome
End
147196935/146275783 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-196a-5p ; hsa-let-7d-5p ; hsa-mir-484 ; hsa-mir-106b-5p ; hsa-mir-218-5p ; hsa-mir-192-3p ; hsa-mir-4799-5p ; hsa-mir-5189-3p ; hsa-mir-6803-5p ; hsa-mir-6751-5p ; hsa-mir-7109-5p ; hsa-mir-4665-5p ; hsa-mir-1275 ; hsa-mir-3935 ; hsa-mir-6846-5p ; hsa-mir-6848-5p ; hsa-mir-4697-5p ; hsa-mir-4488 ; hsa-mir-1237-5p ; hsa-mir-6816-5p ; hsa-mir-3196 ; hsa-mir-3180-3p ; hsa-mir-3180 ; hsa-mir-6787-5p ; hsa-mir-663a ; hsa-mir-1908-5p ; hsa-mir-4749-5p ; hsa-mir-4706 ; hsa-mir-4259 ; hsa-mir-6831-5p ; hsa-mir-3927-3p ; hsa-mir-577 ; hsa-mir-382-5p ; hsa-mir-495-5p ; hsa-let-7c-5p ; hsa-let-7e-5p ; hsa-let-7b-5p ; hsa-let-7a-5p ; hsa-let-7f-5p ; hsa-let-7g-5p ; hsa-mir-4458 ; hsa-mir-4500 ; hsa-let-7i-5p ; hsa-mir-98-5p ; hsa-mir-222-3p ; hsa-mir-221-3p ; hsa-mir-548v ; hsa-mir-187-5p ; hsa-mir-3121-5p ; hsa-mir-1306-5p ; hsa-mir-6507-3p ; hsa-mir-5089-3p ; hsa-mir-32-5p ; hsa-mir-92b-3p ; hsa-mir-92a-3p ; hsa-mir-181d-5p ; hsa-mir-181c-5p ; hsa-mir-181a-5p ; hsa-mir-181b-5p ; hsa-mir-132-3p ; hsa-mir-212-3p ; hsa-mir-3177-5p ; hsa-mir-4282 ; hsa-mir-4302 ; hsa-mir-6856-3p
Nearest miRNA
hsa-mir-12113/Upstream/2932248; hsa-mir-1305/Downstream/132800;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/99373, chr4-CpG: 84/Downstream/246156
Upstream sequence
AAATAGAAGTAGAAGTTGCAAATTAATACATAAAAATATCTAATGCTAATTGATTTTGAAGTCTTGATATATATCACTTTGAAATTTTCTTTCTGTACAA
Downstream sequence
ttttttttttttaaactcaacatacactagtagttcaacacaaaaatattttatgcaacctaccctataaaatggcagtctcagcttggaccttttaggt
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.