USP6 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006846
Fusion event
HBV-USP6 integration
Validated
Yes
Detection method
Alu PCR and sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2015
PubMed ID
25627239
Virus Sequence
Virus name
HBV
Subtype
C2
Reference genome
JQ688404
Region type
X protein
Start
1757
Integrated sequence
GAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTGTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGG| |TTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCC
Host Sequence
Chromosome
chr17
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
5073365/5170070 (Hg38)
End
5073365/5170070 (Hg38)
Location type
Intronic
Target gene
USP6
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-423-5p ; hsa-mir-10b-5p
Nearest miRNA
hsa-mir-1253/Upstream/199920; hsa-mir-10226/Downstream/1485370;
Nearest TSS
ENST00000595228/Upstream/41255; ENST00000575601/Downstream/14327;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/46301, chr17-CpG: 69/Downstream/21474
Nearest cancer related gene
USP6(OG, No orient, 0)
Upstream sequence
taaaggtataaaagggGGTAGGGGTAAGAGGCTATAACTAAAAGGTTTAAAGccttgcaggatttttgtgagacacagaggtaacaacggacagcaggaa
Downstream sequence
attcccagtaccatgcctaacaataggaagtactcagtaaatggtggTCACATTTTTTGTCTAATTTTACAAAGGAGAGGAATATGTATTTGGAAAACTC
Reference
Yan, H., et al. Characterization of the genotype and integration patterns of hepatitis B virus in early- and late-onset hepatocellular carcinoma. Hepatology ,2015,61(6): 1821-1831.
Curate