hsa-mir-550a-3-5p _LIHC.png
PABPC4L _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000132
Fusion event
HBV-PABPC4L integration
Validated
Yes
Detection method
invPCR
Data source
Curated
Sample type
Cell line
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2018
PubMed ID
29437961
Virus Sequence
Virus name
HBV
Reference genome
U95551.1
End
1804
Integrated sequence
ATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGC| |GCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCAT
Host Sequence
Chromosome
chr4
Cytoband
q28.3
Reference genome
GRCh38.p7
Start
134155514 (Hg38)
End
134155514 (Hg38)
Orient
+
Location type
Intronic
Target gene
PABPC4L
miRNAs that regulate target gene
hsa-mir-455-5p ; hsa-mir-4803 ; hsa-mir-548e-5p ; hsa-mir-550b-2-5p ; hsa-mir-550a-5p ; hsa-mir-550a-3-5p ; hsa-mir-1271-3p ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-6781-3p ; hsa-mir-2682-3p ; hsa-mir-195-3p ; hsa-mir-16-2-3p ; hsa-mir-4282
Nearest miRNA
hsa-mir-12113/Upstream/8648207; hsa-mir-1305/Downstream/9187946;
Nearest TSS
ENST00000502981/Upstream/144824; ENST00000503009/Downstream/46234;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/1003041, chr4-CpG: 21/Downstream/788711
Nearby gene
PABPC4L(+40819) ;
Downstream sequence
CTAGGAGGCTGTAGGCATAAATTGGTCTGC
Junction sequence
TGCTCTATCCTCTATACATTGTAATTATTCCTAGGAGGCTGTAGGCATAAATTGGTCTGC
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
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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