Basic Information
VIS ID
TVIS30014841
Fusion event
HIV-SIK3 integration
Validated
Yes
Detection method
LM PCR
Data source
Curated
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Good
Reported year
2014
PubMed ID
24968937
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr11
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
116865420/116994704 (Hg38)
End
116865505/116994704 (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/3544616; hsa-let-7a-2/Downstream/1649296;
Nearest TSS
ENST00000527297/Upstream/37640; ENST00000442124/Downstream/103567;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/158510, chr11-CpG: 117/Downstream/103118
Upstream sequence
ATCCCTTTGGGATTAGCTAATTAATCTCCTCATCTTGACCACAATCATATGTACTATAAGCCATCACTGTCGGACTAAACTGCGACAAACACTCCTGTTA
Downstream sequence
CTACCTATACAATTATTAATACCAACCCCAAAACAATCTGTTTTTGTCCTGCTATTCTTCATTCCTCAAACAAAACAGCCCCAAATTTTTGTGTCCACCT
Target sequence
CAGAGCACCAGGAATCTACGTTTACTCACACCAAACTAAAACATACGGGTTCAGCTTTTAAGGCTCTCTAAAAGTTTTCCCCACG
Reference
Maldarelli, F., et al. Specific HIV integration sites are linked to clonal expansion and persistence of infected cells. Science,2014, 345(6193): 179-183.
Curate