Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10007084
Fusion event
HBV-UQCRQ integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
Not given
Start
2813
End
3034
Orient
+
Host Sequence
Chromosome
chr5
Cytoband
q31.1
Reference genome
End
132204239/132868547 (Hg38)
Orient
+
Location type
Exon
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-130b-3p ; hsa-mir-148a-3p ; hsa-mir-484 ; hsa-mir-106b-5p ; hsa-mir-665 ; hsa-mir-6513-5p ; hsa-mir-887-5p ; hsa-mir-3913-5p ; hsa-mir-3122 ; hsa-mir-450a-1-3p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-6765-5p ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-6722-5p ; hsa-mir-7160-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-6087 ; hsa-mir-3197 ; hsa-mir-4649-3p ; hsa-mir-1288-5p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-5694 ; hsa-mir-7977
Nearest miRNA
hsa-mir-10397/Upstream/502948; hsa-mir-103a-1/Downstream/559049;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/1486, chr5-CpG: 76/Downstream/94720
Upstream sequence
TCCATGACTTTCTGTTTTAAAGAAGGCACCTAACTCAAGCTTCCCTCAGAATACACCTTGGTCACTGCTTCAGGTGAAAAAAAGATTTAAGCCATACTTC
Downstream sequence
aaaaaccctcagcgttttagaaagtttacaaatttttgttgggtcggattcaaagccatcctgggctgcttgctgcccaggactgcggttggacaagctt
Reference
Kawai-Kitahata, F., et al. Comprehensive analyses of mutations and hepatitis B virus integration in hepatocellular carcinoma with clinicopathological features. J Gastroenterol ,2016,51(5): 473-486.