Basic Information
VIS ID
TVIS30007353
Fusion event
HIV-NFATC1 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
chr18
Cytoband
q23
Reference genome
GRCh37/hg19
Start
77186080/79426080 (Hg38)
End
77186080/79426080 (Hg38)
Orient
-
Location type
Intronic
Target gene
NFATC1
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-let-7b-5p ; hsa-mir-145-5p ; hsa-mir-4755-5p ; hsa-mir-5006-3p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-623 ; hsa-mir-324-5p ; hsa-mir-3124-3p ; hsa-mir-4671-5p ; hsa-mir-6832-3p ; hsa-mir-143-3p
Nearest miRNA
hsa-mir-1-2/Upstream/6572698;
Nearest TSS
ENST00000575820/Upstream/25688; ENST00000590224/Downstream/22190;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/5239, chr18-CpG: 19/Downstream/187
Upstream sequence
gcaccaggatcgctggagcccaggagtttgagaccgccctgggcaacatggagagaccccatctctacacaaaatataacaattagccaggtgtggtggt
Downstream sequence
gcgcctgtggtcccagctgctcgggaggctgaggtgggaggatcccgtgaggccactgcactctagcctgggtgacagagcgagaccctgtctcagaaaa
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate