Basic Information
VIS ID
TVIS30000731
Fusion event
HIV-ARL3 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
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr10
Cytoband
q24.32
Reference genome
GRCh37/hg19
Start
104465789/102706032 (Hg38)
End
104465789/102706032 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10D ; FRA10A ; FRA10B
Target gene
ARL3
miRNAs that regulate target gene
hsa-mir-103a-3p ; hsa-mir-16-5p ; hsa-mir-6875-3p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-103a-2-5p ; hsa-mir-4680-5p ; hsa-mir-4778-3p ; hsa-mir-877-3p ; hsa-mir-512-5p ; hsa-mir-3646 ; hsa-mir-4429 ; hsa-mir-320d ; hsa-mir-320c ; hsa-mir-320b ; hsa-mir-320a ; hsa-mir-4660 ; hsa-mir-1976 ; hsa-mir-6736-3p
Nearest miRNA
hsa-mir-107/Upstream/269448; hsa-mir-1307/Downstream/688221;
Nearest TSS
ENST00000439456/Upstream/50869; ENST00000602647/Downstream/8375;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/48624, chr10-CpG: 94/Downstream/7610
Upstream sequence
aacacttgtggaattaaATAGGATGACACACCCAAGTTAACACACGATTTTAAGGTGTTATACAAAAATATATAAAAAGGCTATATAAAATTATAGTTGG
Downstream sequence
GCTTCCTGTTAATGATTTTATCTATTTCAtcatttcacattgcatgcctgtatcaaaacatctcatgtaccctataaatatataacaccatggacccaca
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
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