Basic Information
VIS ID
TVIS30010657
Fusion event
HIV-PNPT1 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
chr2
Cytoband
p16.1
Reference genome
GRCh37/hg19
Start
55871122/55643987 (Hg38)
End
55871122/55643987 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
PNPT1
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-7977 ; hsa-mir-4284 ; hsa-mir-4772-3p ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-136-5p ; hsa-mir-1304-3p ; hsa-mir-6741-3p ; hsa-mir-4726-3p ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-6840-3p ; hsa-mir-6890-3p ; hsa-mir-6722-5p ; hsa-mir-484 ; hsa-mir-3155b ; hsa-mir-3155a ; hsa-mir-652-3p ; hsa-mir-744-3p ; hsa-mir-4423-5p ; hsa-mir-6501-5p ; hsa-mir-3652 ; hsa-mir-4430 ; hsa-mir-3135b ; hsa-mir-31-3p ; hsa-mir-6893-3p ; hsa-mir-370-3p ; hsa-mir-4781-3p ; hsa-mir-6838-3p
Nearest miRNA
hsa-mir-1301/Upstream/1794782; hsa-mir-10b/Downstream/338980;
Nearest TSS
ENST00000437798/Upstream/25107; ENST00000606639/Downstream/3395;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/26057, chr2-CpG: 32/Downstream/49658
Upstream sequence
cactctgcatacttgctaggtacctggcattatactaggtaggccctggggatacaatggtgagccaatatgcttgatttcttgaaattcaccatctagt
Downstream sequence
gAAATCAAATATATCTATACAAATTTTGGAGAGTCTGGTTCTGCTCTCTTAATTACGAGTAGAAACTATAATAGAACCCTTTCCTTACTTTTTTTCTTTC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate