TMEM107 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004916
Fusion event
HBV-TMEM107 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
2685
Orient
-
Integrated sequence
CAATATGTGGGCCCTCTTACAGTTAATGAAAAAAGGAGATTAAAATTAATTATGCCTGCTAGGTTCTATCCTAACCTTACCAAATATTTGCCCTTGGATA| |AAGGCATTAAACCTTATTATCCTGAACATGCAGTTAATCATTACTTCAAAACTAGGCATTATTTACATACTCTGTGGAAGGCTGGCATTCTATATAAGAG
Host Sequence
Chromosome
chr17
Cytoband
p13.1
Reference genome
GRCh37/hg19
Start
8076952/8173634 (Hg38)
End
8076952/8173634 (Hg38)
Orient
-
Location type
Exon
Target gene
TMEM107
miRNAs that regulate target gene
hsa-mir-652-3p ; hsa-let-7e-5p ; hsa-mir-19b-3p ; hsa-mir-335-3p ; hsa-mir-1298-5p ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-3606-3p
Nearest miRNA
hsa-mir-1253/Upstream/28563; hsa-mir-10226/Downstream/13311;
Nearest TSS
ENST00000595228/Upstream/10088; ENST00000581248/Downstream/2682;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/10458, chr17-CpG: 55/Downstream/2538
Upstream sequence
gttctaatctgccctccggaggaggaacaggtaaggattatcccacctgacgatACAGACAAACAGCCGACATTCTGCACTCAGTGAAAAAGATTCCGTT
Downstream sequence
ACAAGCTAGGGTGAGTTCATAACGCGCTGGTATGAGCAATCCTATTATTTAGCGTCCTTCCAGTTGTTTTGCCATATTAGCTCGCACATTTTTTTAAATT
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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