hsa-mir-6780a-3p _LIHC.png
AFF3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004286
Fusion event
HBV-AFF3 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Nontumor
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
chr2
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
100667659/100051197 (Hg38)
End
100667659/100051197 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA2S ; FRA2A
Target gene
AFF3
miRNAs that regulate target gene
hsa-mir-574-5p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-6867-5p ; hsa-mir-3177-5p ; hsa-mir-7703 ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-1227-3p ; hsa-mir-4252 ; hsa-mir-4793-3p ; hsa-mir-766-3p ; hsa-mir-1273g-3p ; hsa-mir-508-5p ; hsa-mir-6849-3p
Nearest miRNA
hsa-mir-1285-2/Upstream/3252844; hsa-mir-10b/Downstream/1258253;
Nearest TSS
ENST00000437798/Upstream/43246; ENST00000434301/Downstream/53333;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/457168, chr2-CpG: 138/Downstream/52726
Nearest cancer related gene
AFF3(OG, No orient, 0)
Upstream sequence
CCCACGGCAAAGCCCATTTCTTCCACCTCAAATAGTCATTCAGGTAGTCTTCTTTAAATGTGGTTATCCTGCCGGTTAGGGCAGACATCAAGCCCCTTTG
Downstream sequence
TTTAAATGCGCACCCACTCCCACCCCAGCCCTGGATGAAACCCCTGGGGTAGACCAGCCCTAATAAGGGAGGTAAAAAGTATTTTGAAAGAGAGCTGGAG
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
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