Basic Information
VIS ID
TVIS30014929
Fusion event
HIV-SPATS2 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
chr12
Cytoband
q13.12
Reference genome
GRCh37/hg19
Start
49857510/49463727 (Hg38)
End
49857734/49463727 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA12A
Target gene
SPATS2
miRNAs that regulate target gene
hsa-mir-590-3p ; hsa-mir-103a-3p ; hsa-mir-296-3p ; hsa-let-7a-5p ; hsa-mir-3154 ; hsa-mir-6873-3p ; hsa-mir-4680-3p ; hsa-mir-5187-3p ; hsa-mir-4427 ; hsa-mir-3921 ; hsa-mir-4653-5p ; hsa-mir-301b-5p ; hsa-mir-301a-5p ; hsa-mir-146a-3p ; hsa-mir-7110-3p ; hsa-mir-6817-3p ; hsa-mir-4639-3p ; hsa-mir-8485 ; hsa-mir-603 ; hsa-mir-1324 ; hsa-mir-4668-5p ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-5695 ; hsa-mir-519d-5p ; hsa-mir-3613-3p ; hsa-mir-3184-3p
Nearest miRNA
hsa-mir-1244-3/Upstream/691690; hsa-let-7i/Downstream/770415;
Nearest TSS
ENST00000382841/Upstream/2848; ENST00000552655/Downstream/26388;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/74317, chr12-CpG: 191/Downstream/74113
Upstream sequence
TATACGTTTAAAGTGTCATTGCTTTGGGTTTTAGTAGTCTAATCTGTAAATACACTGACTTTATCAACTTGGTTATACTACATTAAAAAGAAGGGTCTAT
Downstream sequence
tctagcagaagtcagAGCTGTGCTTCTTAGAGTGTGGGCTGTAGACCCTATTcctgtctgtgaactggagaagtatatagaaatgaagagtgtttaggaa
Target sequence
GGTAGTCATTGTTCTTAGTGGTATTTCATTTACAGGCTCTCATTTTGTAATGAGTTATGTTTTTATTCAGCAATAGACCATGTTTTCAtattttccttttgtcagtaatacttgtaaattccttatttaatgaaatacttagtggagttaaacttgaacagcttaaattaaattaagtcagtttcagttaaaactattgattactccaagcctattagccaata
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