Basic Information
VIS ID
TVIS30013360
Fusion event
HIV-SLIT3 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
chr5
Cytoband
q35.1
Reference genome
GRCh37/hg19
Start
168479051/169052046 (Hg38)
End
168479051/169052046 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5G
Target gene
SLIT3
miRNAs that regulate target gene
hsa-mir-218-2-3p ; hsa-mir-218-5p ; hsa-mir-1343-3p ; hsa-mir-208a-5p ; hsa-mir-208b-5p ; hsa-mir-214-3p ; hsa-mir-24-3p ; hsa-mir-3074-5p ; hsa-mir-3619-5p ; hsa-mir-3690 ; hsa-mir-4254 ; hsa-mir-4291 ; hsa-mir-4511 ; hsa-mir-6077 ; hsa-mir-646 ; hsa-mir-6783-3p ; hsa-mir-7152-5p ; hsa-mir-7-5p ; hsa-mir-761 ; hsa-mir-922
Nearest miRNA
hsa-mir-10397/Upstream/283791; hsa-mir-10523/Downstream/211555;
Nearest TSS
ENST00000502646/Upstream/21608; ENST00000503209/Downstream/248700;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/472133, chr5-CpG: 94/Downstream/248379
Upstream sequence
ACCCAGGTCTTCCCAGAGGGCAGCACAGAGAAAACTTCACAGGACCAGAAGGAAAGGCGATGTACTGAAGGCTAGTTACAATAACCGGACATCCCCAGCC
Downstream sequence
CCCTTCAGAAAGATGCCCCCCTCCAGCCAGAGAACTTCTTCACAGAAATGCGTGTGCATTTTTATTTCCCCTTTAAAACTTGAAAGGGAGCTCATATACC
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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