hsa-mir-130b-3p _LIHC.png
CKAP5 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016085
Fusion event
HBV-CKAP5 integration
Validated
Yes
Detection method
Alu PCR and sequencing
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22962577
Virus Sequence
Virus name
HBV
Reference genome
Not given
Start
1695
Orient
+
Host Sequence
Chromosome
chr11
Cytoband
p11.2
Reference genome
GRCh37/hg19
Start
46777166/46755616 (Hg38)
End
46777166/46755616 (Hg38)
Orient
-
Location type
Intron
Target gene
CKAP5
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-130b-3p ; hsa-mir-34a-5p ; hsa-mir-103a-3p ; hsa-mir-21-5p ; hsa-mir-18a-5p ; hsa-mir-16-5p ; hsa-mir-484 ; hsa-mir-186-5p ; hsa-mir-15b-5p
Nearest miRNA
hsa-mir-129-2/Upstream/2424; hsa-let-7a-2/Downstream/423995;
Nearest TSS
ENST00000527297/Upstream/4234; ENST00000531719/Downstream/5034;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/50129, chr11-CpG: 93/Downstream/90027
Upstream sequence
tcagtcactttattagaagttacaaaaatgaatttctaattccatcattcctctcacatttatttgcttggTTACCCTGAGATATGGTCCCTAGATGAAA
Downstream sequence
GATGGGGAAATTATGGGATTCTCTCCTTTTCATGGATGGCCCACTCTCCTTTGAAAGTGGTGATCTGACCCTTCTTGGATCCTTGGCCCAGATCAAGGTA
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
Curate