Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014549
Fusion event
HBV-SEC24A 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
725
Orient
+
Integrated sequence
CTTTCGGAAAATTCCTATGGGAGTGGGCCTCAGCCCGTTTCTCCTGGCTCAGTTTACTAGTGCCATTTGTTCAGTGGTTCGTAGGGCTTTCCCCCACTGT| |TTGGCTTTCAGTTATATGGATGATGTGGTATTGGGGGCCAAGTCTGTACAGCATCTTGAGTCCCTTTTTACCGCTGTTACCAATTTTCTTTTGTCTTTGG
Host Sequence
Chromosome
chr5
Cytoband
q31.1
Reference genome
End
134035935/134700245 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-mir-30a-5p ; hsa-mir-320a ; hsa-mir-125b-5p ; hsa-mir-92a-3p ; hsa-mir-377-5p ; hsa-mir-329-5p ; hsa-mir-655-5p ; hsa-mir-1294 ; hsa-mir-4316 ; hsa-mir-4464 ; hsa-mir-4524a-5p ; hsa-mir-4748 ; hsa-mir-5087 ; hsa-mir-4524b-5p ; hsa-mir-6086 ; hsa-mir-30c-5p ; hsa-mir-30d-5p ; hsa-mir-30b-5p ; hsa-mir-30e-5p ; hsa-mir-374a-5p ; hsa-let-7a-3p ; hsa-let-7b-3p ; hsa-let-7f-1-3p ; hsa-mir-98-3p ; hsa-mir-383-3p ; hsa-mir-381-3p ; hsa-mir-300 ; hsa-mir-218-5p ; hsa-mir-4666a-3p ; hsa-mir-758-3p ; hsa-mir-892c-5p ; hsa-mir-646 ; hsa-mir-424-5p ; hsa-mir-503-5p ; hsa-mir-6838-5p ; hsa-mir-15a-5p ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-497-5p ; hsa-mir-6739-3p ; hsa-mir-375 ; hsa-mir-4677-5p ; hsa-mir-7156-5p ; hsa-mir-4273 ; hsa-mir-9-3p ; hsa-mir-22-5p ; hsa-mir-2116-5p ; hsa-mir-676-5p ; hsa-mir-4526 ; hsa-mir-3660 ; hsa-mir-888-3p ; hsa-mir-6507-5p ; hsa-mir-4429 ; hsa-mir-320d ; hsa-mir-320c ; hsa-mir-320b ; hsa-mir-186-5p ; hsa-mir-3133 ; hsa-mir-429 ; hsa-mir-200c-3p ; hsa-mir-200b-3p ; hsa-mir-5096 ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-664b-3p ; hsa-mir-579-3p ; hsa-mir-5696 ; hsa-mir-6794-3p ; hsa-mir-197-3p ; hsa-mir-6837-3p ; hsa-mir-6754-3p ; hsa-mir-412-3p ; hsa-mir-27b-3p ; hsa-mir-27a-3p
Nearest miRNA
hsa-mir-10397/Upstream/474393; hsa-mir-103a-1/Downstream/1102740;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/50941, chr5-CpG: 48/Downstream/38148
Upstream sequence
ctgcaatgagctatgatcaggccacctcaagcctgggtgactaagactctgtctctaaaaaagtattttaaaaaattttttgaatggcgttactagaagt
Downstream sequence
agtgttgctctgtccccctggctggagtgcagtggcatgatcatagctcactgcagcctcaactcctgggctcaagcaatcctcttagctcagcctcccg
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.