Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015774
Fusion event
HBV-RARA integration
Validated
No
Detection method
MAPS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
AY800389.1;AY800390.1;AY800391.1;AY800392.1
Orient
-
Host Sequence
Chromosome
chr17
Cytoband
q21.2
Reference genome
Start
End
38507040/40350788 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-125a-5p ; hsa-mir-218-5p ; hsa-mir-615-3p ; hsa-mir-138-5p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-6778-5p ; hsa-mir-1233-5p ; hsa-mir-6780b-5p ; hsa-mir-4725-3p ; hsa-mir-4271 ; hsa-mir-6799-5p ; hsa-mir-5196-5p ; hsa-mir-7106-5p ; hsa-mir-4747-5p ; hsa-mir-6797-5p ; hsa-mir-1249-5p ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-605-3p ; hsa-mir-3925-3p ; hsa-mir-766-3p ; hsa-mir-194-3p ; hsa-mir-6783-5p ; hsa-mir-4756-5p ; hsa-mir-4739 ; hsa-mir-1321 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-3714 ; hsa-mir-6808-5p ; hsa-mir-27a-3p
Nearest miRNA
hsa-mir-1180/Upstream/157125; hsa-mir-10226/Downstream/1166376;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/5201, chr17-CpG: 150/Downstream/11925
Nearest cancer related gene
RARA(OG, No orient, 0)
Upstream sequence
AATGGAGGGGACTGGAGTGTCCTGCCACAG
Junction sequence
AATGGAGGGGACTGGAGTGTCCTGCCACAGGTTGCATGGTGCTGGCGAACAGACCAATTTATGCCTACAGC
* 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.