Basic Information
VIS ID
TVIS30013225
Fusion event
HIV-FRYL 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
chr4
Cytoband
p11
Reference genome
GRCh37/hg19
Start
48645484/48643467 (Hg38)
End
48645484/48643467 (Hg38)
Orient
-
Location type
Intronic
Target gene
FRYL
miRNAs that regulate target gene
hsa-mir-195-5p ; hsa-mir-16-5p ; hsa-mir-15a-5p ; hsa-mir-15b-5p ; hsa-mir-1261 ; hsa-mir-128-3p ; hsa-mir-216a-3p ; hsa-mir-224-5p ; hsa-mir-27a-3p ; hsa-mir-27b-3p ; hsa-mir-3171 ; hsa-mir-3681-3p ; hsa-mir-3681-5p ; hsa-mir-376b-5p ; hsa-mir-376c-5p ; hsa-mir-6849-5p
Nearest miRNA
hsa-mir-12113/Upstream/990724; hsa-mir-1243/Downstream/4069215;
Nearest TSS
ENST00000502981/Upstream/9057; ENST00000511662/Downstream/10450;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/151895, chr4-CpG: 121/Downstream/135847
Upstream sequence
TAGGCTGCTTTCCCTTCCATCACTCTTGGGATTACTTCTTAAAAGACGGTAGCAGTCTGACCTACACTCAAGTAGCAAACAAAGTAATATAACTGTATAC
Downstream sequence
CTAAAGGTATCCAGCAGCCAGAGACAAAGAAAACAAATAAAATATTTAACAAACATCAGCAGCAAATAATATAGGCTGCAAAACAAACCTATTTCGATTA
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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