Basic Information
VIS ID
TVIS30007913
Fusion event
HIV-GIGYF2 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
chr2
Cytoband
q37.1
Reference genome
GRCh37/hg19
Start
233581314/232716604 (Hg38)
End
233581314/232716604 (Hg38)
Orient
+
Location type
Intronic
Target gene
GIGYF2
miRNAs that regulate target gene
hsa-mir-34a-5p ; hsa-mir-455-3p ; hsa-mir-505-3p ; hsa-mir-519e-5p ; hsa-mir-513b-5p ; hsa-mir-515-5p ; hsa-mir-5189-3p ; hsa-mir-5695 ; hsa-mir-519d-5p ; hsa-mir-454-5p ; hsa-mir-125b-2-3p ; hsa-mir-4457 ; hsa-mir-3667-5p
Nearest miRNA
hsa-mir-10b/Upstream/166031; hsa-mir-149/Downstream/4794327;
Nearest TSS
ENST00000437798/Upstream/13183; ENST00000473170/Downstream/47832;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/18767, chr2-CpG: 138/Downstream/159354
Upstream sequence
tactagctgggattgcaggcatgtgccaccacacctggctaatttctttttgcatttttagtagtaatggggtttcaccatgttggctcagctggtcttg
Downstream sequence
aactcctggcctcatgtgatctgccgccttggcctcccaaagtgctgggattacaggcatgagccactgcgcctggccAGtgttttttttgttttgtttt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate