KCNT2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018490
Fusion event
HBV-KCNT2 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1353
End
1735
Integrated sequence
CCCGCAAATATACATCGTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTTTACGTCCCGTCGGCGCTGAATCCTGCGGACGACCCTTCTCGGGGTCGCTTGGGACTCTCTCGTCCCCTTCTCCGTCTGCCGTTCCGACCGACCACGGGGCGCACCTCTCTTTACGCGGACTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCG
Host Sequence
Chromosome
chr1
Cytoband
q31.3
Reference genome
GRCh37.55
Start
196214388/196245258 (Hg38)
End
196214433/196245303 (Hg38)
Location type
Intron2
Fragile sites / regions
FRA1K
Target gene
KCNT2
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-335-3p ; hsa-mir-1305 ; hsa-mir-4452 ; hsa-mir-183-3p ; hsa-mir-4775 ; hsa-mir-500a-5p
Nearest miRNA
hsa-mir-101-1/Upstream/3108675; hsa-mir-1182/Downstream/337110;
Nearest TSS
ENST00000473358/Upstream/184185; ENST00000496761/Downstream/182904;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/3123164, chr1-CpG: 24/Downstream/363275
Upstream sequence
tacagcatgatgctgaggtttggggtagagatcctgtcatccagagagtgagcataggacccaataagtggcttattaacccacacttccctcctagcct
Downstream sequence
aacatagcaagaccctctctctaaaaaagccaaagcaaacccaaaaaaataacaaagcctaagtctgaacacctgaaaagcctttcaagaaagatgggta
Target sequence
ggtgggaggattgcttgagcccgggagtttgagaccagcctgggc
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.
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