Basic Information
VIS ID
TVIS30006099
Fusion event
HIV-SOX5 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
chr12
Cytoband
p12.1
Reference genome
GRCh37/hg19
Start
23953415/23800481 (Hg38)
End
23953415/23800481 (Hg38)
Orient
-
Location type
Intronic
Target gene
SOX5
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-194-5p ; hsa-mir-335-5p ; hsa-mir-1-3p ; hsa-mir-26b-5p ; hsa-mir-96-5p ; hsa-mir-130a-3p ; hsa-mir-181a-5p ; hsa-mir-132-3p ; hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-1231 ; hsa-mir-632 ; hsa-mir-4288 ; hsa-mir-548s ; hsa-mir-3926 ; hsa-mir-4766-5p ; hsa-mir-1277-5p ; hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-511-3p ; hsa-mir-5011-5p ; hsa-mir-574-5p ; hsa-mir-5580-3p ; hsa-mir-555 ; hsa-mir-374a-3p ; hsa-mir-136-3p ; hsa-mir-4704-5p ; hsa-mir-3529-3p ; hsa-mir-6759-5p ; hsa-mir-6793-5p ; hsa-mir-6748-5p ; hsa-mir-933 ; hsa-mir-4783-5p ; hsa-mir-3607-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/6127087; hsa-let-7i/Downstream/411940;
Nearest TSS
ENST00000382841/Upstream/61975; ENST00000540733/Downstream/95545;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/1175202, chr12-CpG: 92/Downstream/761541
Upstream sequence
TCCATACATATTTGCTAGCATATGAATGAAACACTGTCAGATAGATGAACCAAAGGAATGAACACAGTGTGCAAAGGATGCTTAAAACGTACATGATGAT
Downstream sequence
GACTAGTGAGAGACGGTAATATTTCAAAATTGGGACATGAATGATACAACGTTTAGGTATCACTCTTTAAAATTTAAAAAAAAAACAACTTTGGTATAGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate