SLC4A8 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005774
Fusion event
HBV-SLC4A8 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
2398
Orient
-
Integrated sequence
ACCACCAAATGCCCCTATCTTATCAACACTTCCGGAAACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGA| |AGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTATCCCTTGGACTCATAAGGTGGGAAACTTTACTGGGCTTTATTCT
Host Sequence
Chromosome
chr12
Cytoband
q13.13
Reference genome
GRCh37/hg19
Start
51852052/51458268 (Hg38)
End
51852052/51458268 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
FRA12A
Target gene
SLC4A8
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/1224056; hsa-let-7i/Downstream/1440621;
Nearest TSS
ENST00000382841/Upstream/7440; ENST00000550211/Downstream/2950;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/32886, chr12-CpG: 75/Downstream/132422
Upstream sequence
GGTCTCATCTACATTTATTTCCTGGTCTCTACTCATAGTGAATCACCATGTGCAGGGGATATGCCTGGGAATCTATATTTTTGAAAAGTTTTCCATAGGG
Downstream sequence
GTCTCTCATATGCATGTCTGGTGAAGGATTACTGCCTTAATAGAGAAATAAAAGAGGGTCATAAATGTGTTCAGAAAGAAGGTGCAGAAGTAGCAAGAGC
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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