KCNT2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019613
Fusion event
HBV-KCNT2 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
28622513
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1783
Integrated sequence
GTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGC| |TGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTG
Host Sequence
Chromosome
chr1
Cytoband
q31.3
Reference genome
GRCh37/hg19
Start
196435828/196466698 (Hg38)
End
196435828/196466698 (Hg38)
Location type
Intron21
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/3330115; hsa-mir-1182/Downstream/115715;
Nearest TSS
ENST00000473358/Upstream/1311; ENST00000496761/Downstream/141661;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/3344604, chr1-CpG: 24/Downstream/141880
Upstream sequence
GGGTCTCTGCCCGCTATCCCGGGAAGCCTGGGAGGGCAGCTCAGAGCTCTGGGAAGTGCCTCTTCCCAGCATCTGTCCACACTGTGCTCACCAGTGCCTT
Downstream sequence
gcacccttggaagcacaggcgttgtgctgttctgtgcaaatccttgaatgattttgagagcaccgtgaggattggttctgagttttcctcactaaatgag
Reference
Cancer Genome Atlas Research Network. Electronic address, w. b. e. and N. Cancer Genome Atlas Research . Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma. Cell ,2017,169(7): 1327-1341 e13
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