Basic Information
VIS ID
TVIS30010770
Fusion event
HIV-SATB1 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
chr3
Cytoband
p24.3
Reference genome
GRCh37/hg19
Start
18479123/18437631 (Hg38)
End
18479123/18437631 (Hg38)
Orient
+
Location type
Intronic
Target gene
SATB1
miRNAs that regulate target gene
hsa-mir-448 ; hsa-mir-191-5p ; hsa-mir-548b-3p ; hsa-mir-335-5p ; hsa-mir-296-3p ; hsa-mir-21-5p ; hsa-mir-567 ; hsa-mir-297 ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-588 ; hsa-mir-4701-5p ; hsa-mir-8066 ; hsa-mir-8076 ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-129-5p ; hsa-mir-153-3p ; hsa-mir-2054 ; hsa-mir-759 ; hsa-mir-4797-5p ; hsa-mir-374c-5p ; hsa-mir-655-3p ; hsa-mir-574-5p ; hsa-mir-302c-5p ; hsa-mir-147a ; hsa-mir-6818-5p ; hsa-mir-3143 ; hsa-mir-6867-5p ; hsa-mir-644a ; hsa-mir-3911 ; hsa-mir-223-5p ; hsa-mir-636 ; hsa-mir-581 ; hsa-mir-511-3p ; hsa-mir-4322 ; hsa-mir-4296 ; hsa-mir-4265 ; hsa-mir-4417 ; hsa-mir-218-5p
Nearest miRNA
hsa-mir-12127/Upstream/1504371; hsa-let-7g/Downstream/877217;
Nearest TSS
ENST00000440867/Upstream/2378; ENST00000475063/Downstream/1061;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/11459, chr3-CpG: 145/Downstream/5989
Nearest cancer related gene
SATB1(OG, No orient, 0)
Upstream sequence
GTAATTAACTGTCTACTGCTCTAATAACACTAATAAGCATACAGTATTATTAAAATACAGTGATTCTATACAAACTGTCATTGTTAAACTTTTAAGATAA
Downstream sequence
TGTTCTAAATTGTTTCTGAGTCCTCTTGAACCACCCAAAGGGAAATGCAACTCTAAGAAAATTTTTAAAACATAGTTATTAAAATATTGTTTTTTCCTCC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate