PACRG _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016504
Fusion event
HBV-PACRG integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22267523
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
409
End
444
Orient
-
Integrated sequence
TCATCCTGCTGCTATGCCTCATCTTCTTGTTGGTTC
Host Sequence
Chromosome
chr6
Cytoband
q26
Reference genome
GRCh37/hg19
Start
163510786/163089754 (Hg38)
End
163510821/163089789 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6E
Target gene
PACRG
miRNAs that regulate target gene
hsa-mir-26b-5p
Nearest miRNA
hsa-mir-10398/Upstream/4325001; hsa-mir-1913/Downstream/3419565;
Nearest TSS
ENST00000381078/Upstream/27468; ENST00000611387/Downstream/95084;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/361769, chr6-CpG: 46/Downstream/10163
Nearest cancer related gene
PACRG(TSG, No orient, 0)
Upstream sequence
tgggatccagtgcacagagatgcacataaaaggcatgaaacagtgcttgcctttctcaacagaagatgccttgatactttctattttattgtttgttttt
Downstream sequence
TCCATTGGTTTAAGATGAATTTTTAAGCACTATTATTAAAATCTGGTAAATGGTTTTGATGATTCATTTATTTTTTGTAGTATTATTCTATAAGCTTTGG
Target sequence
TAGATACTTCCTGTTACAATTTCAGTCAGCTTTTT
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
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