Basic Information
VIS ID
TVIS30013580
Fusion event
HIV-SND1 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
q32.1
Reference genome
GRCh37/hg19
Start
127295560/127655506 (Hg38)
End
127295560/127655506 (Hg38)
Orient
-
Location type
Intronic
Target gene
SND1
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-877-3p ; hsa-mir-93-5p ; hsa-mir-16-5p ; hsa-mir-361-5p ; hsa-mir-6878-5p ; hsa-mir-198 ; hsa-mir-5703 ; hsa-mir-4516 ; hsa-mir-4434 ; hsa-mir-6770-5p ; hsa-mir-6837-5p ; hsa-mir-4685-5p ; hsa-mir-7113-5p ; hsa-mir-6754-5p ; hsa-mir-4441 ; hsa-mir-6760-5p ; hsa-mir-4270 ; hsa-mir-6756-3p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-6845-3p ; hsa-mir-4469 ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-5009-3p ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-184
Nearest miRNA
hsa-mir-10525/Upstream/597322; hsa-mir-10399/Downstream/426355;
Nearest TSS
ENST00000635602/Upstream/3312; ENST00000461056/Downstream/23539;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/3009, chr7-CpG: 213/Downstream/375599
Upstream sequence
GGACAGAGTTGGTTCTGGAATATTTAAGGAGGAAGTGGACAGTAAGTTGATACAGATATTTTGGAGTTGTTCTGTTACAGAAAAAATCAGCAAGGATGAT
Downstream sequence
GGAAAAACTTAAGATGGATTTGTATTTTCTGAGTTGGGATGAGACTAGCAAGTATGTGGGTGGACAAAATATAACCCAGATAAATACATGTCTTCTATCA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate