FAM135B _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005068
Fusion event
HBV-FAM135B integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
1846
Orient
-
Integrated sequence
AGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCA| |TGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTTAC
Host Sequence
Chromosome
chr8
Cytoband
q24.23
Reference genome
GRCh37/hg19
Start
139421264/138409021 (Hg38)
End
139421264/138409021 (Hg38)
Orient
-
Location type
Intron
Target gene
FAM135B
miRNAs that regulate target gene
hsa-mir-6823-3p ; hsa-mir-2114-3p ; hsa-mir-615-3p ; hsa-mir-361-3p
Nearest miRNA
hsa-mir-1204/Upstream/3604076; hsa-mir-10400/Downstream/2323543;
Nearest TSS
ENST00000518652/Upstream/256617; ENST00000518354/Downstream/16494;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/2950922, chr8-CpG: 119/Downstream/87531
Upstream sequence
gaagctataataatccaaaaagaatggtatttcacaataacatatacaacagtagacagaatagagggccaagacataaattcatgcatttacagtcaac
Downstream sequence
ttcccttatatttacaacttgactactgtttggcaaaagaggcctagctttcagttgatctcagcttttgacatgccttcctcacaaagcttaatcattt
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).
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