Basic Information
VIS ID
TVIS30009227
Fusion event
HIV-SNX8 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
chr7
Cytoband
p22.3
Reference genome
GRCh37/hg19
Start
2370441/2330806 (Hg38)
End
2370441/2330806 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA7B
Target gene
SNX8
miRNAs that regulate target gene
hsa-mir-423-5p ; hsa-mir-107 ; hsa-mir-4774-3p ; hsa-mir-24-2-5p ; hsa-mir-4312 ; hsa-mir-24-1-5p ; hsa-mir-518c-5p ; hsa-mir-1915-5p ; hsa-mir-3664-5p ; hsa-mir-514a-5p ; hsa-mir-4714-5p
Nearest miRNA
hsa-mir-339/Upstream/73229; hsa-mir-10399/Downstream/196268;
Nearest TSS
ENST00000635602/Upstream/16342; ENST00000413917/Downstream/23280;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/16014, chr7-CpG: 152/Downstream/23187
Nearby gene
SNX8(No orient, 16331)
Upstream sequence
gcttgatctgtgggaaacccccacacatttgggcacagaagcctccctctgtgttgactgctgtgggggaatgagaatgcaggaaaaacatggtttttcc
Downstream sequence
taaaacaACAGTGAAGCAAGAAAAAGAAAAGAATGCATATGGATAGAAAAGAAGATTAAATCATAACCAATATAATATACACAGAAAATTCCTAGACAcc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate