Basic Information
VIS ID
TVIS30012053
Fusion event
HIV-IFT140 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
chr16
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
1606606/1556605 (Hg38)
End
1606606/1556605 (Hg38)
Orient
-
Location type
Intronic
Target gene
IFT140
miRNAs that regulate target gene
hsa-mir-93-3p ; hsa-mir-6874-5p ; hsa-mir-6500-5p ; hsa-mir-4633-3p ; hsa-mir-6080 ; hsa-mir-558 ; hsa-mir-6849-5p ; hsa-mir-3681-5p ; hsa-mir-22-3p
Nearest miRNA
hsa-mir-3176/Upstream/786328; hsa-mir-11401/Downstream/178380;
Nearest TSS
ENST00000527434/Upstream/23032; ENST00000563162/Downstream/7505;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/1261, chr16-CpG: 424/Downstream/53448
Upstream sequence
ATAAATCTTTAGTTTGGCTGCTTCTGGCCTTCTAGCGAGTTGAGGGGATCAGTTTGGATTGTGAGGCCCGTATTGCTCCAGGAATTGGTCTTCAACTGCT
Downstream sequence
AAAGACTGGAAAGCATTTACGGACTGACTGTCTATGACACACTCAGCACACAGCGTAGAAATACCAGATTCACGTCCACAGTACACACTAGCAGGGATAG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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