ITGB5 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014156
Fusion event
HBV-ITGB5 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
precore/core protein|Core and e antigen|
Start
1904
Orient
+
Integrated sequence
GCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCAT| |GGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCC
Host Sequence
Chromosome
chr3
Cytoband
q21.2
Reference genome
GRCh37/hg19
Start
124576223/124857376 (Hg38)
End
124576223/124857376 (Hg38)
Orient
-
Location type
Intronic
Target gene
ITGB5
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-155-5p ; hsa-let-7b-5p
Nearest miRNA
hsa-let-7g/Upstream/124860; hsa-mir-12124/Downstream/294089;
Nearest TSS
ENST00000440867/Upstream/8925; ENST00000610060/Downstream/21343;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/126762, chr3-CpG: 187/Downstream/28836
Upstream sequence
tataaatttccctctacacactgctttgaatgtgtcccagagattctggtatgttgtgtctttgttctcgttggtttcaaagaacatctttatttctgcc
Downstream sequence
TCTGAACATGCCCATGAGGAACAAAGGTgacaaagaccctaagatgctgagagatggagtaacttgcccagggcctccaagctagggacagagccagagc
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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