Basic Information
VIS ID
TVIS30012011
Fusion event
HIV-EDC3 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
chr15
Cytoband
q24.1
Reference genome
GRCh37/hg19
Start
74959560/74667219 (Hg38)
End
74959560/74667219 (Hg38)
Orient
+
Location type
Intronic
Target gene
EDC3
miRNAs that regulate target gene
hsa-mir-361-5p ; hsa-mir-103a-3p ; hsa-mir-22-3p ; hsa-mir-16-5p ; hsa-mir-320c ; hsa-mir-744-5p ; hsa-mir-615-3p ; hsa-mir-324-5p ; hsa-mir-99b-5p ; hsa-mir-320a ; hsa-mir-31-5p ; hsa-mir-30e-5p ; hsa-mir-30d-5p ; hsa-mir-30c-5p ; hsa-mir-30b-5p ; hsa-mir-30a-5p ; hsa-mir-195-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p ; hsa-mir-1197 ; hsa-mir-29a-3p ; hsa-mir-29b-3p ; hsa-mir-29c-3p ; hsa-mir-3135a ; hsa-mir-4433b-3p ; hsa-mir-4733-3p
Nearest miRNA
hsa-mir-10393/Upstream/255787; hsa-mir-11181/Downstream/121453;
Nearest TSS
ENST00000557528/Upstream/11326; ENST00000343932/Downstream/4380;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/51022, chr15-CpG: 39/Downstream/28606
Upstream sequence
atgacaataggagacaggtttctcactgttggagtgagaagtaacagacaagcaaaaggagaaggctagaaggatccatgtggtaatggattaaagttgg
Downstream sequence
agacatcagtatgaactcatacttagtatagtacaatatacatagttacatatagaaatatttaaatatgtatatatatgctggttaaatatacacacat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate