Basic Information
VIS ID
TVIS30001639
Fusion event
HIV-SNX27 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
chr1
Cytoband
q21.3
Reference genome
GRCh37/hg19
Start
151653097/151680621 (Hg38)
End
151653097/151680621 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1F
Target gene
SNX27
miRNAs that regulate target gene
hsa-mir-4999-3p ; hsa-mir-7977 ; hsa-mir-26b-3p ; hsa-mir-4267 ; hsa-mir-7160-5p ; hsa-mir-4722-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-1827 ; hsa-mir-4649-3p ; hsa-mir-665 ; hsa-mir-4768-3p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-887-5p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-2467-3p ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-890
Nearest miRNA
hsa-mir-101-1/Upstream/134730; hsa-mir-1182/Downstream/2009084;
Nearest TSS
ENST00000473358/Upstream/4765; ENST00000457548/Downstream/20405;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/67892, chr1-CpG: 25/Downstream/40894
Upstream sequence
TGGAATTGCTGGAGTAGATAATCACTGTGACCCACCTCTGCCTTGGGAAAGTGttcatcaaatattagtactgttgtgagtcagacatagttctaggcgt
Downstream sequence
taggggtaaaaacaaaacagaaagacagtattcttatattcttattctcatcgaaacaatacagaaataaagaaaaatagttgtaaaGCCTTTTCCCTGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate