Basic Information
VIS ID
TVIS30005200
Fusion event
HIV-NFYC 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
p34.2
Reference genome
GRCh37/hg19
Start
41164128/40698456 (Hg38)
End
41164128/40698456 (Hg38)
Orient
-
Location type
Intronic
Target gene
NFYC
miRNAs that regulate target gene
hsa-mir-33a-5p ; hsa-mir-155-5p ; hsa-mir-221-3p
Nearest miRNA
hsa-mir-12136/Upstream/2609127; hsa-mir-101-1/Downstream/55899;
Nearest TSS
ENST00000473358/Upstream/6166; ENST00000531464/Downstream/10901;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/6153, chr1-CpG: 128/Downstream/84962
Upstream sequence
ctctttgaaaaaaaaaaaaaaaTTCACGTTCAAGGTACTATATATAAGGTGTCCTATTTAAATGAATGCCATTCATTCATTTATTTATTTGCTggagtct
Downstream sequence
tgctctgtcgcccaggctggagtgcagtgacatgacctcggctcactgcaacctctgccttttgggttcagacgattctcctgcctcagcctcctgagta
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate