FN1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016300
Fusion event
HBV-FN1 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22267523
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1788
End
1823
Orient
-
Integrated sequence
GCATAAATTGGTCTGCGCACCAGCACCATGCAACTT
Host Sequence
Chromosome
chr2
Cytoband
q35
Reference genome
GRCh37/hg19
Start
216281824/215417101 (Hg38)
End
216281859/215417136 (Hg38)
Orient
+
Location type
Intronic
Target gene
FN1
miRNAs that regulate target gene
hsa-mir-200c-3p ; hsa-mir-200b-3p ; hsa-mir-1-3p ; hsa-let-7g-5p ; hsa-mir-26b-5p ; hsa-mir-615-3p ; hsa-mir-218-5p ; hsa-mir-140-3p
Nearest miRNA
hsa-mir-10b/Upstream/1658942; hsa-mir-1244-1/Downstream/2483377;
Nearest TSS
ENST00000437798/Upstream/7151; ENST00000412951/Downstream/4134;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/104692, chr2-CpG: 43/Downstream/18408
Upstream sequence
attatgtaagcaagtaaaaattacactttacatgtagtattatatgtgttattggccttttaaacttaatattttcattttattatatattctttgaaaa
Downstream sequence
TACATTATTTAGATTTAAACTTTTGACAGTCCTTTTTCGCTACTGGTAGTTGGTATAACTTTTTAAATTAACTTAATTGGCATATACTAGCTATCGCCAT
Target sequence
TTAAAGACAGAAAAGTTAAAAATTATGACATCTTT
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
Curate