Basic Information
VIS ID
TVIS30011913
Fusion event
HIV-DPF3 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
chr14
Cytoband
q24.2
Reference genome
GRCh37/hg19
Start
73098602/72631894 (Hg38)
End
73098602/72631894 (Hg38)
Orient
-
Location type
Intronic
Target gene
DPF3
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-6873-3p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-3615 ; hsa-mir-6872-5p ; hsa-mir-6814-3p ; hsa-mir-3613-3p ; hsa-mir-373-3p ; hsa-mir-4446-5p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-623 ; hsa-mir-942-5p ; hsa-mir-5088-3p ; hsa-mir-576-5p ; hsa-mir-3920 ; hsa-mir-29a-5p
Nearest miRNA
hsa-mir-208a/Upstream/114996; hsa-mir-1185-1/Downstream/1126853;
Nearest TSS
ENST00000550708/Upstream/36769; ENST00000510612/Downstream/43877;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/699057, chr14-CpG: 165/Downstream/260187
Upstream sequence
aattgtataattagtgccatgaaggaaaagcataattggccgtaaaaacacatagaagaacctaacctagactgagatgacaaggaaaccttccctgaga
Downstream sequence
aagatctttaagctgatatgtgtcagatgagacgttagctaggtgggaagaggaggattccaagtaaggggaacagcatgggtggaggctttgagcagtg
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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