FN1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019775
Fusion event
HBV-FN1 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2017
PubMed ID
28622513
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
266
End
421
Integrated sequence
TTCTCTCAATTTTCTAGGGGGAACTACCGTGTGTCTTGGCCAAAATTCGCAGTCCCCAACCTCCAATCACTCACCAACCTCTTGTCCTCCAACTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGCTGCT
Host Sequence
Chromosome
chr2
Cytoband
q35
Reference genome
GRCh37/hg19
Start
216279559/215414836 (Hg38)
End
216279680/215414957 (Hg38)
Location type
Exon34
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/1656677; hsa-mir-1244-1/Downstream/2485556;
Nearest TSS
ENST00000437798/Upstream/4886; ENST00000412951/Downstream/6313;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/102427, chr2-CpG: 43/Downstream/20587
Upstream sequence
CAGTTTATACATCAACCATGAAATTTTCCTTACCATAGTTGTAATTGTTCCGGAAATAGGTCTTCTGTGTAGCTCTAATAGGCTTACATTTACAGCGTTC
Downstream sequence
CCTGAAAATGAAAATGTAGCATTTAATTATCTTGAATATTCACTCACTTCAACTTAAAACTGTGTACATGGACAGTCATCATTATAAACAGCTTTGCTTG
Target sequence
AGGTCTCCACCTGAGAATGTACTTGGAAATGTGAGATGGCTGTGGTGCATTCCACTGGATGGGGTGGGAGTTGGGCTGACTCGGAGTCTCAGTGATAAATACTTCGACAGGACCACTTGAG
Reference
Cancer Genome Atlas Research Network. Electronic address, w. b. e. and N. Cancer Genome Atlas Research . Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma. Cell ,2017,169(7): 1327-1341 e13
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