Basic Information
VIS ID
TVIS30005976
Fusion event
HIV-SIK3 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
chr11
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
116802610/116931894 (Hg38)
End
116802610/116931894 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA11G ; FRA11B
Target gene
SIK3
miRNAs that regulate target gene
hsa-mir-454-3p ; hsa-mir-620 ; hsa-mir-1270 ; hsa-mir-4683 ; hsa-mir-501-5p ; hsa-mir-500a-5p ; hsa-mir-6083 ; hsa-mir-190a-3p ; hsa-mir-4789-5p ; hsa-mir-374b-5p ; hsa-mir-374a-5p ; hsa-mir-466 ; hsa-mir-3941 ; hsa-mir-656-3p ; hsa-mir-5011-5p ; hsa-mir-410-3p ; hsa-mir-5692c ; hsa-mir-5692b ; hsa-mir-369-3p ; hsa-mir-4643 ; hsa-mir-4789-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-1277-5p
Nearest miRNA
hsa-mir-10392/Upstream/3481806; hsa-let-7a-2/Downstream/1712106;
Nearest TSS
ENST00000527297/Upstream/56381; ENST00000442124/Downstream/25150;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/95700, chr11-CpG: 117/Downstream/165928
Upstream sequence
AGCAGGGCGAGGCCAAGATAACTCAGCTCCCCCTAAGCAGGTTAATAAGAGTGCAGTCACTTTAATATCCTATTGTCCTCTAACTCCCAGGCGTGGCTGC
Downstream sequence
CACTGACTAGAGGAAGAGGGTTTGTCATTTTGTCTTTCTTGCCAAGAATCCAACTACCTCTTACCGGGCTTCTTGACTTGTTGCTGCTTCTTGTTACTAT
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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