FN1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015668
Fusion event
HBV-FN1 integration
Validated
No
Detection method
MAPS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2012
PubMed ID
23236287
Virus Sequence
Virus name
HBV
Reference genome
AY800389.1
Start
1875
Orient
-
Integrated sequence
GGAGGCTGTAGGCATAAATTGGTGTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAA| |GCTGTGCCTTGGGTGGCTTTAGGGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTTACTCTCTTTTTTGCCTTCTGACTTCTTTCCT
Host Sequence
Chromosome
chr2
Cytoband
q35
Reference genome
GRCh37/hg19
Start
216293206/215428483 (Hg38)
End
216293206/215428483 (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/1670324; hsa-mir-1244-1/Downstream/2472030;
Nearest TSS
ENST00000437798/Upstream/7213; ENST00000412951/Downstream/7584;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/116074, chr2-CpG: 43/Downstream/7061
Upstream sequence
TTCATATTCAGCTCTGGTGCTGCAAGGTATTACA
Junction sequence
TTCATATTCAGCTCTGGTGCTGCAAGGTATTACAGCCTCCTAGTACAAAGACCTTTAACCTAATCTCCTCCCCCAACTCCTCCCAGTC
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Ding, D., et al. Recurrent targeted genes of hepatitis B virus in the liver cancer genomes identified by a next-generation sequencing-based approach. PLoS Genet ,2010,8(12): e1003065.
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