USP40 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019624
Fusion event
HBV-USP40 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
1465
End
1794
Integrated sequence
TCGGGGTCGCTTGGGACTCTCTCGTCCCCTTCTCCGTCTGCCGTTCCGACCGACCACGGGGCGCACCTCTCTTTACGCGGACTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAAATATTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGT
Host Sequence
Chromosome
chr2
Cytoband
q37.1
Reference genome
GRCh37/hg19
Start
234401458/233492812 (Hg38)
End
234401458/233492812 (Hg38)
Location type
Intron7
Target gene
USP40
miRNAs that regulate target gene
hsa-mir-484
Nearest miRNA
hsa-mir-10b/Upstream/942239; hsa-mir-149/Downstream/4018119;
Nearest TSS
ENST00000437798/Upstream/1473; ENST00000485022/Downstream/665;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/15728, chr2-CpG: 46/Downstream/73603
Upstream sequence
AATACTGACAATATCCACTCTTAGGCACAACTACTAGTGTTTCTCTGCAGATAGAGAGAAAACAAAACAAAACACACAAAATAAAACACATTTTGATTTT
Downstream sequence
GCTCCATTTCTTTATAATGAAGTGGAACTCCTCTTTGTACAAGGGCAACAGAACTCACTGATAGTGACTTCTGCCCATCGTGATGTGTGCGGCTGAGTGC
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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