Basic Information
VIS ID
TVIS30001562
Fusion event
HIV-ATPAF1 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
chr1
Cytoband
p33
Reference genome
GRCh37/hg19
Start
47121947/46656275 (Hg38)
End
47121947/46656275 (Hg38)
Orient
-
Location type
Intronic
Target gene
ATPAF1
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-1275 ; hsa-mir-128-3p ; hsa-mir-1296-3p ; hsa-mir-151a-5p ; hsa-mir-151b ; hsa-mir-216a-3p ; hsa-mir-27a-3p ; hsa-mir-27b-3p ; hsa-mir-3148 ; hsa-mir-3681-3p ; hsa-mir-4447 ; hsa-mir-4472 ; hsa-mir-4525 ; hsa-mir-4665-5p ; hsa-mir-4668-5p ; hsa-mir-4723-5p ; hsa-mir-4727-3p ; hsa-mir-4731-3p ; hsa-mir-4801 ; hsa-mir-5010-5p ; hsa-mir-5698 ; hsa-mir-6080 ; hsa-mir-625-5p ; hsa-mir-6870-5p ; hsa-mir-7111-5p
Nearest miRNA
hsa-mir-12136/Upstream/2110723; hsa-mir-101-1/Downstream/4403562;
Nearest TSS
ENST00000473358/Upstream/11019; ENST00000564071/Downstream/2452;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/39370, chr1-CpG: 81/Downstream/11727
Upstream sequence
GCTGGGAAGATAACAGGTAGGGCAGGAGAAGGAGATAAGAGACACATTTGAAGCAGAGAATGACAACACTAACAAAGGCATAGAAGTAGAGGAGGGTATC
Downstream sequence
ATAACCAAGGTGACACCAGAGTGAGCTAGTGTTGAAGAATGggtcaacttcctttagagttggtctgttttgtcaacatttctgttaaaatatggggccc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate