Basic Information
VIS ID
TVIS30005275
Fusion event
HIV-ODF2L 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
p22.3
Reference genome
GRCh37/hg19
Start
86851985/86386302 (Hg38)
End
86851985/86386302 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1D
Target gene
ODF2L
miRNAs that regulate target gene
hsa-mir-6818-3p ; hsa-mir-1229-5p ; hsa-mir-1225-5p ; hsa-mir-4540 ; hsa-mir-4524b-5p ; hsa-mir-4524a-5p ; hsa-mir-593-3p ; hsa-mir-6895-3p ; hsa-mir-503-3p ; hsa-mir-107 ; hsa-mir-103a-3p ; hsa-mir-3121-5p ; hsa-mir-6838-3p ; hsa-mir-646 ; hsa-mir-503-5p ; hsa-mir-6838-5p ; hsa-mir-497-5p ; hsa-mir-424-5p ; hsa-mir-195-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p ; hsa-mir-4482-5p ; hsa-mir-3130-5p ; hsa-mir-1912 ; hsa-mir-1295b-5p ; hsa-mir-5089-5p ; hsa-mir-5681b ; hsa-mir-5589-5p ; hsa-mir-4731-5p ; hsa-mir-29b-1-5p ; hsa-mir-7853-5p ; hsa-mir-105-5p ; hsa-mir-4506 ; hsa-mir-522-3p ; hsa-mir-224-3p ; hsa-mir-4711-3p
Nearest miRNA
hsa-mir-101-1/Upstream/28615; hsa-mir-11399/Downstream/7460530;
Nearest TSS
ENST00000473358/Upstream/758; ENST00000490884/Downstream/9675;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/229114, chr1-CpG: 47/Downstream/9581
Upstream sequence
ACAAGTGTATTCCCCACTCTAAAGAAGTATGACAAGTATTTGCTATATAGTAATATACCAAATGACAGTGATTTCACATTCATTAACTACATTTCTGATA
Downstream sequence
TCACATATTATATTTTCATTTATCTTAAATAGCTTTATTTTACAAATTCTTAACAGATGAGGttttcattttttttgtctttttcttttttgagatggag
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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