Basic Information
VIS ID
TVIS30005103
Fusion event
HIV-NBPF1 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
p36.13
Reference genome
GRCh37/hg19
Start
16936402/16609907 (Hg38)
End
16936402/16609907 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
NBPF1
miRNAs that regulate target gene
hsa-mir-30e-3p ; hsa-mir-30d-3p ; hsa-mir-30a-3p ; hsa-mir-3942-3p ; hsa-mir-7154-5p ; hsa-mir-549a ; hsa-mir-1250-3p ; hsa-mir-8060 ; hsa-mir-1324 ; hsa-mir-641 ; hsa-mir-3617-5p
Nearest miRNA
hsa-mir-12136/Upstream/4030884; hsa-mir-101-1/Downstream/249042;
Nearest TSS
ENST00000473358/Upstream/1257; ENST00000607700/Downstream/3580;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/61589, chr1-CpG: 88/Downstream/3054
Upstream sequence
gtgatggctcatgcctgtgatcccaacactttgggatgccaaggtgggaggatcatttcagcccaggagtttgaaaccagtctgggcactacaggaaaac
Downstream sequence
cctgtctacaaaaaggagaaaattagccgggcacagtggtgcatgcctgtagacccagctactaaggaggctgaggtgggaggagtgcttgagcctgaga
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate