PTPRR _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10020462
Fusion event
HBV-PTPRR integration
Validated
No
Detection method
VirusScan
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2016
PubMed ID
27339696
Virus Sequence
Virus name
HBV
Reference genome
NC_003977.1
Start
1
End
906
Orient
+
Integrated sequence
TCCACAACATTCCACCAAGCTCTGCTAGATCCCAGAGTGAGGGGCCTATATTTTCCTGCTGGTGGCTCCAGTTCCGGAACAGTAAACCCTGTTCCGACTACTGCCTCACCCATATCGTCAATCTTCTCGAGGACTGGGGACCCTGCACCGAACATGGAGAGCACAACATCAGGATTCCTAGGACCCCTGCTCGTGTTACAGGCGGGGTTTTTCTTGTTGACAAGAATCCTCACAATACCACAGAGTCTAGACTCG
Host Sequence
Chromosome
chr12
Cytoband
q15
Reference genome
GRCh37/hg19
Start
71212933/70819153 (Hg38)
End
71213981/70820201 (Hg38)
Orient
+
Location type
Intronic
Target gene
PTPRR
miRNAs that regulate target gene
hsa-mir-150-5p
Nearest miRNA
hsa-let-7i/Upstream/1234330; hsa-mir-1178/Downstream/8599056;
Nearest TSS
ENST00000382841/Upstream/30171; ENST00000549015/Downstream/100642;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/208876, chr12-CpG: 104/Downstream/619211
Upstream sequence
TCCCTGGTTCTCATTTCTGtgtattagatatctattgtaatgtaagaaattactccagaatgcagcaacttaatacagtaacacttacaattttatagtg
Downstream sequence
GACACCACTCTGTTCTATTGTCTTGGCAGAAAATGATACTCAATAGTCTGGGAAAAGACTGAGAGTGATTCCtaacagagactctcttcttgataaaact
Target sequence
ctactaaaaatacaaaaattagccaggtgtggtggcgcatgcctgtagtcccagctactccggaggctgaggcatgaggaggtgcaggttgcactgagctgagattgcaccactgcgctccagcctgggtgacagagtgagactctgtctcaaaacaaacaaacaaacaagaaagaataaaGAGCAAAAATAGACATTGGCTCATAGAGGTATGGTCAAATTGTGCATTTATGGGCTTCATATGTTTTGCAAAGT
Reference
Cao, S., et al.Divergent viral presentation among human tumors and adjacent normal tissues. Sci Rep,2016, 6: 28294.
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