Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004765
Fusion event
HBV-KMT2B 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
1827
Orient
+
Integrated sequence
GACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCA| |CCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTT
Host Sequence
Chromosome
chr19
Cytoband
q13.12
Reference genome
Start
End
36212800/35721898 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-7515 ; hsa-mir-302a-5p ; hsa-mir-3154 ; hsa-mir-6782-3p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-5692a ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p ; hsa-mir-20b-5p ; hsa-mir-153-3p ; hsa-mir-1224-3p ; hsa-mir-1294 ; hsa-mir-1914-3p ; hsa-mir-214-3p ; hsa-mir-31-5p ; hsa-mir-3184-5p ; hsa-mir-3619-5p ; hsa-mir-3689d ; hsa-mir-423-5p ; hsa-mir-4316 ; hsa-mir-4426 ; hsa-mir-4440 ; hsa-mir-4459 ; hsa-mir-4647 ; hsa-mir-4662b ; hsa-mir-4688 ; hsa-mir-4722-5p ; hsa-mir-5194 ; hsa-mir-6085 ; hsa-mir-6165 ; hsa-mir-6734-5p ; hsa-mir-6738-5p ; hsa-mir-6743-5p ; hsa-mir-6789-5p ; hsa-mir-6813-5p ; hsa-mir-6851-5p ; hsa-mir-761 ; hsa-mir-7704 ; hsa-mir-885-3p
Nearest miRNA
hsa-mir-10395/Upstream/376271; hsa-let-7e/Downstream/3687725;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/1874, chr19-CpG: 24/Downstream/1828
Upstream sequence
ATGCCGGTGAGTGTGGTCCCTGGGCCCAGCGGCACACCCAGCCATCCAGCCTCCATTCTTTGCAACCCCCTAACCTTCCGCCTCCTTGGACACTTTCCAG
Downstream sequence
CATTGCGGGGAACCCTCAGAACCTGCCTTTCTGTGATCCCCCACCTTCCTTTGTTCCTCCCCAGACCTGGCCCTTCTCTGTGCTAGTTCCCTGTCCCTAt
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).