Basic Information
VIS ID
TVIS30010147
Fusion event
HIV-SLIT1 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
chr10
Cytoband
q24.1
Reference genome
GRCh37/hg19
Start
98790026/97030269 (Hg38)
End
98790026/97030269 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10D ; FRA10A ; FRA10B
Target gene
SLIT1
miRNAs that regulate target gene
hsa-mir-421 ; hsa-mir-4266 ; hsa-mir-6769a-5p ; hsa-mir-6769b-5p ; hsa-mir-92a-2-5p ; hsa-mir-654-5p ; hsa-mir-6508-3p ; hsa-mir-541-3p ; hsa-mir-4726-5p ; hsa-mir-4640-5p ; hsa-mir-5787 ; hsa-mir-4505 ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-7157-3p ; hsa-mir-6737-3p ; hsa-mir-5008-3p ; hsa-mir-4779 ; hsa-mir-4695-5p ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-570-3p ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-660-3p ; hsa-mir-5193 ; hsa-mir-141-5p ; hsa-mir-1324 ; hsa-mir-629-3p ; hsa-mir-4713-5p ; hsa-mir-1197 ; hsa-mir-1224-5p ; hsa-mir-3064-3p ; hsa-mir-4722-3p ; hsa-mir-4751 ; hsa-mir-5004-5p ; hsa-mir-6727-3p
Nearest miRNA
hsa-mir-107/Upstream/201505; hsa-mir-1287/Downstream/845544;
Nearest TSS
ENST00000439456/Upstream/30603; ENST00000424428/Downstream/72287;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/196753, chr10-CpG: 27/Downstream/13039
Upstream sequence
tgagatttttgaggaatcaAGCCCACTGCTTTTAAGGAATTCTCATAGCACTGCTAGCTAAATGGTTTTGGAAGTAATTCTACATTGAATTACAGCACCT
Downstream sequence
ATTGGAGGCAGTAAATTTCCAGAGCTTATCCTGCACTGTGTGAAGTcggaggcacagtactagtggagcgcttaagagcactggcctaggagtcagaaac
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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