Basic Information
VIS ID
TVIS30001616
Fusion event
HIV-PDE4DIP 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
q21.2
Reference genome
GRCh37/hg19
Start
144923821/148960652 (Hg38)
End
144923821/148960652 (Hg38)
Orient
+
Location type
Exonic
Fragile sites / regions
FRA1F
Target gene
PDE4DIP
miRNAs that regulate target gene
hsa-mir-505-3p ; hsa-mir-92a-3p ; hsa-let-7a-5p ; hsa-mir-493-3p ; hsa-mir-620 ; hsa-mir-1270 ; hsa-mir-4531 ; hsa-mir-5703 ; hsa-mir-4516 ; hsa-mir-4434 ; hsa-mir-539-5p ; hsa-mir-432-5p ; hsa-mir-3976 ; hsa-mir-6856-5p ; hsa-mir-6758-5p ; hsa-mir-3121-3p ; hsa-mir-452-3p ; hsa-mir-582-5p ; hsa-mir-3618 ; hsa-mir-139-5p ; hsa-mir-670-3p ; hsa-mir-4465 ; hsa-mir-26b-5p ; hsa-mir-26a-5p ; hsa-mir-1297 ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-660-3p ; hsa-mir-5193 ; hsa-mir-6513-3p ; hsa-mir-8079 ; hsa-mir-1245a ; hsa-mir-3614-3p
Nearest miRNA
hsa-mir-101-1/Upstream/572289; hsa-mir-1182/Downstream/1531693;
Nearest TSS
ENST00000473358/Upstream/8311; ENST00000496263/Downstream/1758;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/7503, chr1-CpG: 98/Downstream/142260
Upstream sequence
CCTGGAGTTCTGCCAAGTGGGAATCAGATACAGACTGCTGAGTTATAGTGGTCTCATGTGAATTCAGCTTTTGTTGTTTCAGCAACTCTTCAGTCATGGG
Downstream sequence
CTAGGAAGAAACGGCAAGGAAGAAACGGCAAAACGAGTAAGGTGAGTTAAACATGGCCAACAAAATTTTTTTTTTGTCTTCAAAAATGTCTGTTGCATCT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate