Basic Information
VIS ID
TVIS30004463
Fusion event
HIV-NUP107 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
chr12
Cytoband
q15
Reference genome
GRCh37/hg19
Start
69115317/68721537 (Hg38)
End
69115317/68721537 (Hg38)
Orient
-
Location type
Intronic
Target gene
NUP107
miRNAs that regulate target gene
hsa-mir-93-5p
Nearest miRNA
hsa-let-7i/Upstream/2470380; hsa-mir-1178/Downstream/551620;
Nearest TSS
ENST00000382841/Upstream/401; ENST00000401003/Downstream/11036;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/34165, chr12-CpG: 47/Downstream/24498
Upstream sequence
CACACATTTATTGATGACTTAAAATACTCATAGCTGTATGCAGAAATGTACCGGAAAGACACAGTGAGTCCTTGGGTTGTCTTACATACGCATGTTTTCT
Downstream sequence
CACAACCCACTACTCCCTACATATTATAGCTATCTTTAGGGATACTATACTAATCAGTTGAAATGTCATATCAGCCTGGAAAACTGATGTTGTTGTTAAC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate