Basic Information
VIS ID
TVIS30009506
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
27244341/27386824 (Hg38)
End
27244341/27386824 (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/337861; hsa-mir-10400/Downstream/46546;
Nearest TSS
ENST00000518652/Upstream/6170; ENST00000521000/Downstream/10628;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/60951, chr8-CpG: 29/Downstream/76573
Nearest cancer related gene
PTK2B(OG, No orient, 0)
Upstream sequence
TACTAGGTTTGCAAAGAGTGGCAGACTAGGGGGTTGGCAGGTGAAGCTTGTTCAAGACAATGGTTTTGTTGGTTTTAAGGTGTTGAGAGATGGTGGGCTA
Downstream sequence
CATCTGTACAGTTAGACTTGGGTTTATACTTTCTAGTTAAAAAAAGTACCTGAGGTTTTTTTTTTTTTAATCACCTACTTTTTTTTCTGTTTATTACATG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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