hsa-mir-4659a-3p _LIHC.png
ZNF48 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014886
Fusion event
HBV-ZNF48 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Cell line
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2014
PubMed ID
24582836
Virus Sequence
Virus name
HBV
Reference genome
NC_003977.1
Region type
X / Core
Start
1835
End
2021
Orient
+
Integrated sequence
TAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTTACTCTCTTTTTTGCCTTCTGACTTCTTTCCTTCTATTCGAGATCTCCTCGACACCGCCTCTGCTCTGTATCGGGAGGC
Host Sequence
Chromosome
chr16
Cytoband
p11.2
Reference genome
GRCh37.p10
Start
30408209/30396888 (Hg38)
End
30408356/30397035 (Hg38)
Orient
+
Location type
Intronic
Target gene
ZNF48
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-766-3p ; hsa-mir-484 ; hsa-mir-5089-5p ; hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-3177-5p ; hsa-mir-3650 ; hsa-mir-5589-5p ; hsa-mir-4731-5p ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-3692-5p ; hsa-mir-3934-5p ; hsa-mir-6504-3p ; hsa-mir-552-3p ; hsa-mir-548av-3p ; hsa-mir-877-3p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6875-3p ; hsa-mir-5006-3p ; hsa-mir-629-3p ; hsa-mir-4755-5p ; hsa-mir-6867-3p ; hsa-mir-4713-5p ; hsa-mir-6868-3p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-623 ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-7113-3p ; hsa-mir-4469 ; hsa-mir-26a-2-3p ; hsa-mir-26a-1-3p ; hsa-mir-6731-3p ; hsa-mir-1248 ; hsa-mir-1237-3p ; hsa-mir-3667-3p ; hsa-mir-5088-3p ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-6756-3p ; hsa-mir-3127-3p ; hsa-mir-211-5p ; hsa-mir-204-5p
Nearest miRNA
hsa-mir-1225/Upstream/797623; hsa-mir-11401/Downstream/106884;
Nearest TSS
ENST00000527434/Upstream/897; ENST00000564550/Downstream/10262;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/919, chr16-CpG: 53/Downstream/3069
Upstream sequence
GCCTCCCAAAGTGCTAGGATTACAGGTGTGAGCCACCCTGCTGGCCTGGCTTTGCTACTTTCTAACCTTTATAACCTCCAGCAAAAGGACTAATCATCT
Target sequence
ACCATGTTGCCCAGGCTGGTTTCTAACTCCTGGGCTTAAGTGATCCACCCACCTCGGCCTCCCAAAGTGCTAGGATTACAGGTGTGAGCCACCCTGCTGGCCTGGCTTTGCTACTTTCTAACCTTTATAACCTCCAGCAAAAGGACT
Junction sequence
GCCTCCCAAAGTGCTAGGATTACAGGTGTGAGCCACCCTGCTGGCCTGGCTTTGCTACTTTCTAACCTTTATAACCTCCAGCAAAAGGACTAATCATCTAATCATCTCATGTTCATGTTCCACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGAGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTTACTCTCTTTTTTGCCTTCTGACTTTTTCCCTTCTATTCGTGATCTCCTCGACACCGCTTCTGCTCTGTATCGGGAGG
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Lau, C. C., et al. Viral-human chimeric transcript predisposes risk to liver cancer development and progression. Cancer Cell ,2014,25(3): 335-349.
Curate