Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10012097
Fusion event
HBV-KMT2B integration
Validated
Yes
Detection method
PCR and Sanger 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
Region type
precore/core protein|Core and e antigen|
Start
2196
Orient
-
Integrated sequence
AATGACTCTAGCTACCTGGGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCTAGTAGTCAGTTATGTCAACACTAATATGGGCCTAAAGTTCAGG| |CAACTCTTGTGGTTTCACATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTT
Host Sequence
Chromosome
chr19
Cytoband
q13.12
Reference genome
Start
End
36212659/35721757 (Hg38)
Orient
+
Location type
Exonic
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/376130; hsa-let-7e/Downstream/3687866;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/1733, chr19-CpG: 24/Downstream/1969
Upstream sequence
CCCCTGGAAAAAGCCCGGATTGCGGGCGTGGGTTCCTTGCCGCTGTCTGGGGTAGAGGAGAAGATGTTCAGCCTCCTCAAGAGAGCCAAAGTGCAGCTAT
Downstream sequence
TCAAGATCGATCAGCAGCAGCAGCAGAAGGTGGCAGCTTCCATGCCGGTGAGTGTGGTCCCTGGGCCCAGCGGCACACCCAGCCATCCAGCCTCCATTCT
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.