Basic Information
VIS ID
TVIS30009507
Fusion event
HIV-PTK2B integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr8
Cytoband
p21.2
Reference genome
GRCh37/hg19
Start
27277308/27419791 (Hg38)
End
27277308/27419791 (Hg38)
Orient
-
Location type
Intronic
Target gene
PTK2B
miRNAs that regulate target gene
hsa-mir-23b-3p ; hsa-mir-335-5p ; hsa-mir-517c-3p ; hsa-mir-517a-3p ; hsa-mir-4736 ; hsa-mir-3665 ; hsa-mir-4514 ; hsa-mir-4692 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p
Nearest miRNA
hsa-mir-124-1/Upstream/370828; hsa-mir-10400/Downstream/13579;
Nearest TSS
ENST00000518652/Upstream/22339; ENST00000521000/Downstream/2485;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/93918, chr8-CpG: 29/Downstream/43606
Nearest cancer related gene
PTK2B(OG, No orient, 0)
Upstream sequence
CTGCCTCATTTCACCCATTTGTCAATTTATCAGATAGAGCCCATTGTGTACAAATCTTCCCCTAAATGCTAGAGAATCAGAGACAAATCGAACATGAAGA
Downstream sequence
CAGAATCCCACCCTAGAGAATCCCACTTTTCAGGTCTGTGTGAGAATTATGGGAGCCCAAAGGTGGGCACCCCTGAGTCATGCCTCTCTCTTCTCCTCTG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate