Basic Information
VIS ID
TVIS30005593
Fusion event
HIV-CSTF2T 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
chr10
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
53455467/51695707 (Hg38)
End
53455467/51695707 (Hg38)
Orient
+
Location type
UTR3
Fragile sites / regions
FRA10G
Target gene
CSTF2T
miRNAs that regulate target gene
hsa-mir-148b-3p ; hsa-mir-132-3p ; hsa-mir-221-3p ; hsa-mir-92a-3p ; hsa-let-7c-5p ; hsa-mir-4282 ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-222-3p ; hsa-mir-5581-3p ; hsa-mir-548v ; hsa-mir-187-5p ; hsa-mir-873-3p ; hsa-mir-136-5p ; hsa-mir-6872-3p ; hsa-mir-3163 ; hsa-mir-3161 ; hsa-mir-3689f ; hsa-mir-3689e ; hsa-mir-3689b-5p ; hsa-mir-3689a-5p ; hsa-mir-141-5p ; hsa-mir-8066 ; hsa-mir-6796-3p ; hsa-mir-99b-3p ; hsa-mir-99a-3p
Nearest miRNA
hsa-mir-1265/Upstream/396052; hsa-mir-107/Downstream/2912167;
Nearest TSS
ENST00000439456/Upstream/227984; ENST00000646354/Downstream/3884;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/620715, chr10-CpG: 40/Downstream/3784
Upstream sequence
CTCAAAATGATCGAGCCAACTCTGTGAATTAGTATTAAGCATAACTATCACATATGTAAACGCGAGTTATCCTCTCCAATATAGGGGAGGCATATAGGAA
Downstream sequence
ACATGGGAAAGTAGCAGTATGAACAAGAGTAAAACAGGTAGTAGAAAACAACAGCATAGGGATGAAAACCTTGCAAACAAAGAATTACTAATTTAAAGTG
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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