Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005235
Fusion event
HBV-ERC1 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1684
Orient
+
Integrated sequence
TTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAGGTCTTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTC| |AACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGT
Host Sequence
Chromosome
chr12
Cytoband
p13.33
Reference genome
Start
End
1148873/1039707 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-let-7b-5p ; hsa-mir-335-5p ; hsa-mir-183-5p ; hsa-mir-26b-5p ; hsa-let-7d-5p ; hsa-mir-320b ; hsa-mir-1229-3p ; hsa-mir-320a ; hsa-mir-221-3p ; hsa-mir-27b-3p ; hsa-mir-27a-3p ; hsa-mir-513a-5p ; hsa-mir-4278 ; hsa-mir-7111-5p ; hsa-mir-6870-5p ; hsa-mir-5698 ; hsa-mir-4723-5p ; hsa-mir-939-5p ; hsa-mir-1343-5p ; hsa-mir-920 ; hsa-mir-6726-5p ; hsa-mir-5591-5p ; hsa-mir-4300 ; hsa-mir-8085 ; hsa-mir-6731-5p ; hsa-mir-4487 ; hsa-mir-4445-5p ; hsa-mir-6754-5p ; hsa-mir-342-3p ; hsa-mir-4441 ; hsa-mir-4270 ; hsa-mir-761 ; hsa-mir-3619-5p ; hsa-mir-214-3p ; hsa-mir-6732-5p ; hsa-mir-6805-5p ; hsa-mir-6794-5p ; hsa-mir-4716-3p ; hsa-mir-6760-5p ; hsa-mir-6510-5p ; hsa-mir-6873-5p ; hsa-mir-143-5p ; hsa-mir-6879-3p ; hsa-mir-3652 ; hsa-mir-4430 ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-6499-3p ; hsa-mir-4462 ; hsa-mir-6773-3p ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-5190 ; hsa-mir-500b-3p ; hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-1267 ; hsa-mir-203b-3p ; hsa-mir-3183 ; hsa-mir-3612 ; hsa-mir-4723-3p ; hsa-mir-5196-3p ; hsa-mir-650 ; hsa-mir-6769b-3p ; hsa-mir-6787-3p ; hsa-mir-7111-3p ; hsa-mir-7158-3p
Nearest miRNA
hsa-let-7i/Downstream/620608;
Nearest CpG islands
Upstream sequence
GGGAACTCTTTTCCCTACGATTAACAACGGAAATGGATTAGAAAGTGGAACTAAATTTAGAGTAAGGAATGATGAATTTGGTTTTAATTATTTGAATAAA
Downstream sequence
AGTTTTTCATAAGAATTTGGAGATAAGAGACTAATGACTGTGACCTCAGGTACATGCATATAGATGTTATAAAGGTGTGCTTGTTAATGTTGGGGAACTC
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).