Basic Information
VIS ID
TVIS30009607
Fusion event
HIV-RAD21 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
chr8
Cytoband
q24.11
Reference genome
GRCh37/hg19
Start
117877586/116865347 (Hg38)
End
117877586/116865347 (Hg38)
Orient
-
Location type
Intronic
Target gene
RAD21
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-191-5p ; hsa-let-7a-5p ; hsa-mir-143-5p ; hsa-mir-3944-5p ; hsa-mir-4683 ; hsa-mir-6124 ; hsa-mir-3148 ; hsa-mir-107 ; hsa-mir-103a-3p ; hsa-mir-574-5p ; hsa-mir-875-3p ; hsa-mir-665 ; hsa-mir-4433a-3p ; hsa-mir-383-3p ; hsa-mir-6715a-3p ; hsa-mir-648 ; hsa-mir-4433b-3p ; hsa-mir-6888-5p ; hsa-mir-383-5p ; hsa-mir-122-5p ; hsa-mir-4428 ; hsa-mir-92b-3p ; hsa-mir-32-5p ; hsa-mir-92a-3p ; hsa-mir-17-5p
Nearest miRNA
hsa-mir-12123/Upstream/4221764; hsa-mir-10400/Downstream/9381;
Nearest TSS
ENST00000518652/Upstream/13095; ENST00000521487/Downstream/1644;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/98440, chr8-CpG: 81/Downstream/8766
Upstream sequence
TCTCATACTCGTTTGTAGTGTCCCTAAAGTGGCACAAAGTACTCGGTACATATCATGAAAAAAATCTGTTATCCTTTTAAGCCACTCAATATTTGCTTAC
Downstream sequence
GGATGTTAAAGATTAGCCACACATATACTTTCCAGAAAGGAGTACGATTTCTACGTTTTCCATTAACTTATCCCAGTAAGCATACCTATAAAAAAAATTG
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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