hsa-mir-6780a-3p _LIHC.png
AFF3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018349
Fusion event
HBV-AFF3 integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
28622513
Virus Sequence
Virus name
HBV
Reference genome
Not given
Start
1799
Host Sequence
Chromosome
chr2
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
100415419/99798957 (Hg38)
End
100415419/99798957 (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/3000604; hsa-mir-10b/Downstream/1510493;
Nearest TSS
ENST00000437798/Upstream/220587; ENST00000434301/Downstream/207888;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/204928, chr2-CpG: 138/Downstream/304966
Nearest cancer related gene
AFF3(OG, No orient, 0)
Upstream sequence
CACTCGATATCCAGTGAGCTGAACATTGGGTGGTGTCCACTGGGCGCTCAGGCTTGTGGGTGTGACCTGAGTGAACTTCAGGTCAGTTGGTGCAGGAATA
Downstream sequence
gtagaaaatgtaatgaaatctacagaaaaagctactaaaattaataagttagtttcacaaagttgcaggatacaagatcagtaaacaaatataaattaca
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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