Basic Information
VIS ID
TVIS30003824
Fusion event
HIV-FLOT1 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
chr6
Cytoband
p21.33
Reference genome
GRCh37/hg19
Start
30705656/30737879 (Hg38)
End
30705656/30737879 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
FLOT1
miRNAs that regulate target gene
hsa-mir-214-3p ; hsa-mir-484 ; hsa-mir-320a ; hsa-mir-182-5p ; hsa-mir-124-3p ; hsa-mir-939-5p ; hsa-mir-1343-5p ; hsa-mir-6809-5p ; hsa-mir-6756-3p ; hsa-mir-3127-3p ; hsa-mir-4640-3p ; hsa-mir-485-5p ; hsa-mir-506-3p
Nearest miRNA
hsa-mir-3143/Upstream/153462; hsa-mir-10398/Downstream/153004;
Nearest TSS
ENST00000381078/Upstream/14002; ENST00000607333/Downstream/2915;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/16126, chr6-CpG: 161/Downstream/4651
Upstream sequence
ggtcatttacttgcttactagctgtttcctgtgtcataatgtaagctgcataagggcaggaatcttttctgcctcacctccatatttatagcctcacctc
Downstream sequence
caaaatggtgtctagcacatagaaggcacttaacagatatttgttgaataaatCCTTCTTTCCTGAACACCTAGCACACTGCCTGGTGCATAACGAGAAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate