Basic Information
VIS ID
TVIS30000512
Fusion event
HIV-SETX 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
chr9
Cytoband
q34.13
Reference genome
GRCh37/hg19
Start
135175101/132299714 (Hg38)
End
135175101/132299714 (Hg38)
Orient
+
Location type
Intronic
Target gene
SETX
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-18a-3p ; hsa-mir-377-3p ; hsa-mir-539-5p ; hsa-mir-485-3p ; hsa-mir-432-5p ; hsa-mir-4477b ; hsa-mir-4694-5p ; hsa-mir-24-3p ; hsa-mir-3934-3p ; hsa-mir-2467-5p ; hsa-mir-3934-5p ; hsa-mir-764 ; hsa-mir-125a-3p ; hsa-mir-586 ; hsa-mir-541-5p
Nearest miRNA
hsa-let-7a-1/Upstream/1673351; hsa-mir-126/Downstream/645993;
Nearest TSS
ENST00000422679/Upstream/13217; ENST00000393215/Downstream/12142;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/57172, chr9-CpG: 93/Downstream/54833
Upstream sequence
CATAACTAAGACTAAAAAAGTTGCAATTGCcaaaaaggcagtttggcataagaaaaacaatgtggactttgcagtcaacaaaagcaggcttcaattctgg
Downstream sequence
acttaccaattaacactgatgacagccttgaaaataggtttacttaacatccctgaaccatgatttcctggggagcaaggaataatttcttctacctttt
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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