RP1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10003076
Fusion event
HBV-RP1 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
chr6
Cytoband
p21.2
Reference genome
GRCh37/hg19
Start
38912788/38945012 (Hg38)
End
38912788/38945012 (Hg38)
Location type
ncRNA_intronic
Fragile sites / regions
FRA6H
Target gene
RP1
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-1236/Upstream/1389590; hsa-mir-10398/Downstream/129302;
Nearest TSS
ENST00000381078/Upstream/12095; ENST00000373256/Downstream/8087;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/229523, chr6-CpG: 67/Downstream/103519
Upstream sequence
ATTAGGACAGTGTCCACCTGCCTGAAAGTATTTGAATTCAAATTTCCTTAATAGGTTGTGCTGTTCAAACAAAACATATTTGAGGGCCATGTTGCAATTT
Downstream sequence
accccaaccctaacccATCCATGTCTTTATCTATCTGTTTGACCTGGTAACAAGTAGTTTTTAATGGCAAGCTTCTGGAGGAGTAATGACTAAGAAGTGA
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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