LOC440896 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10013600
Fusion event
HBV-LOC440896 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
1930
Orient
+
Integrated sequence
CTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTG| |GAGCTACTGTGGAGTTACTCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGA
Host Sequence
Chromosome
chr9
Cytoband
p11.2
Reference genome
GRCh37/hg19
Start
69195012/41121783 (Hg38)
End
69195012/41121783 (Hg38)
Orient
+
Location type
Intronic
Target gene
LOC440896
Nearest miRNA
hsa-mir-101-2/Upstream/192691; hsa-let-7a-1/Downstream/111972;
Nearest TSS
ENST00000422679/Upstream/15554; ENST00000619442/Downstream/6680;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/46841, chr9-CpG: 103/Downstream/1753
Nearby gene
LOC440896(-13971) ; FOXD4L6(+4468) ;
Upstream sequence
agtaataaagattaaatccatgtgatacaggtaaaCTCATGACAATAATAGACATGAAACAAATAGTCTTTCATCTCCCTCCTTTGCTCAAGCATTGctc
Downstream sequence
agttcagtttctcccataaaaaatgcaagggaaacaaaaaaagaggattgaggaaatctaaaagagatataatagcccatatcaaccaaacacaatacgt
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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