hsa-mir-5003-5p _LIHC.png
TNS3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019825
Fusion event
HBV-TNS3 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
2867
Integrated sequence
GCGGGTATATTATATAAGAGAGAAACAACACATAGCGCCTCATTTTGTGGGTCACCATATTCTTGGGAACAAGATCTACAGCATGGGGCAGAATCTTTCC| |ACCAGCAATCCTCTGGGATTCTTTCCCGACCACCAGTTGGATCCAGCCTTCAGAGCAAACACCGCAAATCCAGATTGGGACTTCAATCCCAACAAGGACA
Host Sequence
Chromosome
chr7
Cytoband
p12.3
Reference genome
GRCh37.55
Start
47336204/47296606 (Hg38)
End
47336204/47296606 (Hg38)
Location type
Intron7
Target gene
TNS3
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-21-5p ; hsa-mir-342-3p ; hsa-let-7i-5p ; hsa-mir-8070 ; hsa-mir-5003-5p ; hsa-mir-8485 ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-1178-3p ; hsa-mir-6071 ; hsa-mir-6749-3p ; hsa-mir-377-3p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-5088-3p
Nearest miRNA
hsa-mir-1183/Upstream/2414806; hsa-mir-10399/Downstream/9659179;
Nearest TSS
ENST00000635602/Upstream/16288; ENST00000429010/Downstream/103832;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/41918, chr7-CpG: 95/Downstream/240105
Upstream sequence
ccgggcagaggctgcactctgggcactttgggaggccaaggcaggcagctgggaggtggaggttgtagcgagccgagatcacgccactgcactccagcct
Downstream sequence
GTATCACTTTTAATCCATCTAAAAATGCCCTACTGGGTATAGATACAAGAATAGTACTCAACAGTATGCTAGTTTTCATATAAAAAATGTGTTTGCCTGC
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.
Curate