TMEM44 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005735
Fusion event
HBV-TMEM44 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
1826
Orient
+
Integrated sequence
GGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTC| |ACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATT
Host Sequence
Chromosome
chr3
Cytoband
q29
Reference genome
GRCh37/hg19
Start
194335243/194614514 (Hg38)
End
194335243/194614514 (Hg38)
Orient
+
Location type
Intron
Target gene
TMEM44
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-374b-3p ; hsa-mir-4524b-5p ; hsa-mir-4524a-5p ; hsa-mir-548c-3p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-3613-3p ; hsa-mir-629-3p ; hsa-mir-6867-3p ; hsa-mir-4713-5p ; hsa-mir-627-3p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-7113-3p ; hsa-mir-4469 ; hsa-mir-138-2-3p ; hsa-mir-6752-3p ; hsa-mir-25-3p ; hsa-mir-25-5p ; hsa-mir-32-5p ; hsa-mir-3616-5p ; hsa-mir-363-3p ; hsa-mir-367-3p ; hsa-mir-377-5p ; hsa-mir-4325 ; hsa-mir-4459 ; hsa-mir-455-3p ; hsa-mir-4795-5p ; hsa-mir-573 ; hsa-mir-6086 ; hsa-mir-6087 ; hsa-mir-6499-3p ; hsa-mir-6516-5p ; hsa-mir-658 ; hsa-mir-7703 ; hsa-mir-92a-3p ; hsa-mir-92b-3p
Nearest miRNA
hsa-let-7g/Upstream/4784505; hsa-mir-3137/Downstream/519992;
Nearest TSS
ENST00000440867/Upstream/3536; ENST00000447139/Downstream/1162;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/30192, chr3-CpG: 99/Downstream/15093
Upstream sequence
GTCTGCACCGGGGAAGGTGGGGACTAGAAAGATGGAGTTGATGGGGACAAGTTGGTTTGGGGGCTGGTGCGAAGGAGCAGGGAGGGCGCGCGcgcgcgca
Downstream sequence
tgcctcagcctcctaagtagctgggactacaggcacacaccaccatacccggccaattttttttgtatttttggtagagacggggtttcaccctgttgcc
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).
Curate