EFCAB5 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10003010
Fusion event
HBV-EFCAB5 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
27703150
Virus Sequence
Virus name
HBV
Reference genome
AF090842.1;AB033554.1;AB014381.1;M32138.1;AB032431.1;AB036910.1;AB064310;AY090454.1
Host Sequence
Chromosome
chr17
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
28338452/30011434 (Hg38)
End
28338452/30011434 (Hg38)
Location type
Intronic
Target gene
EFCAB5
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-1273e ; hsa-mir-6807-5p ; hsa-mir-561-5p ; hsa-mir-6894-5p ; hsa-mir-7106-5p ; hsa-mir-1233-3p ; hsa-mir-3922-5p ; hsa-mir-1225-3p
Nearest miRNA
hsa-mir-1180/Upstream/620704; hsa-mir-10226/Downstream/105645;
Nearest TSS
ENST00000595228/Upstream/42228; ENST00000584826/Downstream/20329;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/81044, chr17-CpG: 27/Downstream/105294
Upstream sequence
tgtgaagaaagttattggtagcttgatggggatggcactgaatctataaattaccttgggcagtatggccattttcacgatattgattcttcctatccat
Downstream sequence
gagcatggaatgttcttccatttgtttgtgccctcttttatttcattgagcagtggtttgtggttctccttgaagaggtccttcacatcccttgtaagtt
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
Curate