PDZRN4 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000452
Fusion event
HBV-PDZRN4 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
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
chr12
Cytoband
q12
Reference genome
GRCh37/hg19
Start
41926432/41532630 (Hg38)
End
41926432/41532630 (Hg38)
Location type
Intronic
Target gene
PDZRN4
miRNAs that regulate target gene
hsa-mir-128-3p ; hsa-mir-340-5p ; hsa-mir-524-5p ; hsa-mir-520d-5p ; hsa-mir-4719 ; hsa-mir-3613-3p ; hsa-mir-5590-3p ; hsa-mir-142-5p ; hsa-mir-583 ; hsa-mir-1276 ; hsa-mir-4311 ; hsa-mir-7844-5p ; hsa-mir-4282
Nearest miRNA
hsa-mir-1244-3/Upstream/15658551; hsa-let-7i/Downstream/791070;
Nearest TSS
ENST00000382841/Upstream/23079; ENST00000548210/Downstream/231559;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/343457, chr12-CpG: 16/Downstream/40833
Downstream sequence
GCATATTTTTCTGCAATATTACATAGTAGA
Junction sequence
GAACTCCTAGCAGCTTGTTTTGCTCGCAGCCAGTCTGGAGCAAAACTCATCGGAACCGACAACTCTGTTGTCCTCTCTCGGAAATTCACCTCCTTTCCATGGCTGCTGGGGTGTGCTGCATATTTTTCTGCAATATTACATAGTAGA
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
Curate