hsa-mir-3944-5p _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019806
Fusion event
HBV-chr4 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1814
Integrated sequence
GACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCAC| |CATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGAC
Host Sequence
Chromosome
chr4
Cytoband
q23
Reference genome
GRCh37.55
Start
100062927/99141776 (Hg38)
End
100062929/99141778 (Hg38)
Location type
Intron
Target gene
ADH4 ; LOC100507053
miRNAs that regulate target gene
hsa-mir-4666a-5p ; hsa-mir-8068 ; hsa-mir-143-5p ; hsa-mir-3944-5p ; hsa-mir-5087 ; hsa-mir-4764-5p ; hsa-mir-657 ; hsa-mir-3665 ; hsa-mir-4722-5p ; hsa-mir-1286 ; hsa-mir-873-5p ; hsa-mir-4748 ; hsa-mir-4464 ; hsa-mir-6841-5p ; hsa-mir-1265 ; hsa-mir-376c-3p
Nearest miRNA
hsa-mir-12113/Upstream/144316; hsa-mir-1243/Downstream/2099017;
Nearest TSS
ENST00000502981/Upstream/5239; ENST00000506454/Downstream/1033;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/52798, chr4-CpG: 40/Downstream/421792
Upstream sequence
TAAATATTAATTGCTTTTTTGTTACTGTTGTGCTCTGTGACTGGATGAAGCCATATTGACTTAAATACAGAATATTTAAAGTCTTTAAAGTTTTATTTCA
Downstream sequence
TATAAGACTTCTAGAACTCAATAAAAGAATCACCTTTTGAAAAAAGAACCAATAAAAATATACTGGGTTAGATTATTTTCCTCTTATAATGCATCTTTGT
Target sequence
TT
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