Basic Information
VIS ID
TVIS30003470
Fusion event
HIV-RFTN1 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
chr3
Cytoband
p24.3
Reference genome
GRCh37/hg19
Start
16370892/16329385 (Hg38)
End
16370892/16329385 (Hg38)
Orient
-
Location type
Intronic
Target gene
RFTN1
miRNAs that regulate target gene
hsa-mir-484
Nearest miRNA
hsa-mir-12127/Upstream/455536; hsa-let-7g/Downstream/603811;
Nearest TSS
ENST00000440867/Upstream/2518; ENST00000607363/Downstream/9923;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/63906, chr3-CpG: 113/Downstream/183435
Upstream sequence
tgatctcaggtatcctgttacaacagcacaagtggaccgagacagggcggaagtggagaaagggaaagggaaagaggaaacttaataaaggaaggcggaa
Downstream sequence
gggaggagggaagggaggaaaggagagagagGTACAAGAATAATCCGTTTACAGGTGGGGCCAGGAGAGAATGCCATTCTGGTCCCTTCCCTGAAGCCTC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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