SLC35F3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008677
Fusion event
HBV-SLC35F3 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
X protein|precore/core protein|
Start
1828
Orient
+
Integrated sequence
AGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTC| |ACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATT
Host Sequence
Chromosome
chr1
Cytoband
q42.2
Reference genome
GRCh37/hg19
Start
234193861/234058115 (Hg38)
End
234193861/234058115 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1H
Target gene
SLC35F3
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-215-5p ; hsa-mir-192-5p
Nearest miRNA
hsa-mir-101-1/Upstream/433896; hsa-mir-1537/Downstream/248352;
Nearest TSS
ENST00000473358/Upstream/153182; ENST00000366617/Downstream/156156;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/152404, chr1-CpG: 63/Downstream/156023
Upstream sequence
tcttcttatttgagtgggaaggcatccattctttcactgttaaatataatatttgttatgggtttgcatacatacccttatcagggtgataaagttcact
Downstream sequence
tctagccttaggtttgttgagcgctttaatatgaaagagtgtcacatattgtcaattttttttggtttgctttgggtttttttttcgaggatttttgctt
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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