Basic Information
VIS ID
TVIS30011273
Fusion event
HIV-PTGER3 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
chr1
Cytoband
p31.1
Reference genome
GRCh37/hg19
Start
71478051/71012368 (Hg38)
End
71478051/71012368 (Hg38)
Orient
+
Location type
Exonic
Fragile sites / regions
FRA1L
Target gene
PTGER3
miRNAs that regulate target gene
hsa-mir-27b-5p ; hsa-mir-556-5p ; hsa-mir-5003-3p ; hsa-mir-514b-3p ; hsa-mir-514a-3p ; hsa-mir-6818-3p ; hsa-mir-489-3p ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-5695 ; hsa-mir-519d-5p
Nearest miRNA
hsa-mir-101-1/Upstream/2828758; hsa-mir-11399/Downstream/55263;
Nearest TSS
ENST00000473358/Upstream/64989; ENST00000426999/Downstream/35265;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/600960, chr1-CpG: 131/Downstream/34173
Upstream sequence
TCCATCATTAGAGCAGCTGGAGACAGCATTTGCTACCTGGCAAAACTTTCGAAGAAGGATCTTTCTTAACAGCAGGTAAACCCAAGGATCCAAGATCTGG
Downstream sequence
TTCAGTGAAGCCAGGCGAACAGCTATTAAGAAGAAGTTGCATTCTTTCTGCTTCTCCGTGTGTGTCTTGCAGTGCTCAACTGATGTCTGATTGAAGATCA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate