Basic Information
VIS ID
TVIS30008529
Fusion event
HIV-SLBP 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
chr4
Cytoband
p16.3
Reference genome
GRCh37/hg19
Start
1709059/1707332 (Hg38)
End
1709059/1707332 (Hg38)
Orient
+
Location type
Intronic
Target gene
SLBP
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-26b-5p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-106a-3p ; hsa-mir-3124-3p ; hsa-mir-4733-5p ; hsa-mir-4703-5p ; hsa-mir-3942-5p ; hsa-mir-548e-5p ; hsa-mir-129-5p ; hsa-mir-8064 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-4643 ; hsa-mir-105-5p ; hsa-mir-1197 ; hsa-mir-370-3p ; hsa-mir-6893-3p ; hsa-mir-7853-5p
Nearest miRNA
hsa-mir-571/Upstream/1357080; hsa-mir-12113/Downstream/279052;
Nearest TSS
ENST00000502981/Upstream/23030; ENST00000605571/Downstream/4686;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/22588, chr4-CpG: 188/Downstream/4208
Upstream sequence
aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaagagttcaagaccagcctggctaacatggtgaaacg
Downstream sequence
ctgtctctactaaaaatacaaaaatcagctgggtgtggtggtgggtgcctataatcccagctactcgggaggctaaggcaggagaatcacttgaacctgg
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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