Basic Information
VIS ID
TVIS30009648
Fusion event
HIV-PTK2 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
q24.3
Reference genome
GRCh37/hg19
Start
141778566/140768467 (Hg38)
End
141778566/140768467 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA8D
Target gene
PTK2
miRNAs that regulate target gene
hsa-mir-193a-3p ; hsa-mir-138-5p ; hsa-mir-7-5p ; hsa-mir-21-5p ; hsa-let-7e-5p ; hsa-let-7c-5p ; hsa-mir-543 ; hsa-mir-379-5p ; hsa-mir-135a-5p
Nearest miRNA
hsa-mir-1204/Upstream/35814; hsa-mir-10400/Downstream/1017775;
Nearest TSS
ENST00000518652/Upstream/3231; ENST00000522882/Downstream/2499;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/132052, chr8-CpG: 176/Downstream/231874
Upstream sequence
tgggaaaatacatacaagtgtttgcagacATTTATCTAAATTTTGATGCTTACAGAGTAATCCTCACAAcaaccacttgagacctttcccagatgaagac
Downstream sequence
ccaagagatgaagcaatttgcttgtaatccctcagctagtcagctgctgactggAtggggcagtggaaaaagggcaaggctggagcctaagacctgacca
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate