Basic Information
VIS ID
TVIS30003318
Fusion event
HIV-PPP4R1L 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
chr20
Cytoband
q13.32
Reference genome
GRCh37/hg19
Start
56850506/58275450 (Hg38)
End
56850506/58275450 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
PPP4R1L
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-4539 ; hsa-mir-27b-5p ; hsa-mir-369-3p
Nearest miRNA
hsa-mir-103a-2/Upstream/953859; hsa-mir-1-1/Downstream/542165;
Nearest TSS
ENST00000382410/Upstream/46797; ENST00000488949/Downstream/34246;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/46394, chr20-CpG: 81/Downstream/33860
Upstream sequence
atccttgtactcttataactccataataagcagacaaacagcccaattaaaagaATAAGtgttcataaatgagcccagcacattattaatactaataacc
Downstream sequence
gaaagatggaaacaacctaaatatctgtcaactgaggagtgaataatcaaaatactacgtatccattcaatggagcattattaaaggaatgaggtactga
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate