Basic Information
VIS ID
TVIS30013138
Fusion event
HIV-CD47 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
q13.12
Reference genome
GRCh37/hg19
Start
107782850/108064003 (Hg38)
End
107782850/108064003 (Hg38)
Orient
+
Location type
Intronic
Target gene
CD47
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-505-3p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-20b-5p ; hsa-mir-17-5p ; hsa-mir-192-5p ; hsa-mir-142-5p ; hsa-mir-3613-3p ; hsa-mir-4708-5p ; hsa-mir-4756-3p ; hsa-mir-548a-5p ; hsa-mir-548ab ; hsa-mir-548ad-5p ; hsa-mir-548ae-5p ; hsa-mir-548ak ; hsa-mir-548am-5p ; hsa-mir-548ap-5p ; hsa-mir-548aq-5p ; hsa-mir-548ar-5p ; hsa-mir-548as-5p ; hsa-mir-548au-5p ; hsa-mir-548av-5p ; hsa-mir-548ay-5p ; hsa-mir-548b-5p ; hsa-mir-548bb-5p ; hsa-mir-548c-5p ; hsa-mir-548d-5p ; hsa-mir-548h-5p ; hsa-mir-548i ; hsa-mir-548j-5p ; hsa-mir-548k ; hsa-mir-548l ; hsa-mir-548o-5p ; hsa-mir-548w ; hsa-mir-548y ; hsa-mir-5590-3p ; hsa-mir-559 ; hsa-mir-625-3p ; hsa-mir-6792-5p ; hsa-mir-8054
Nearest miRNA
hsa-let-7g/Upstream/4539887; hsa-mir-12124/Downstream/1538825;
Nearest TSS
ENST00000440867/Upstream/4471; ENST00000607746/Downstream/27011;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/135909, chr3-CpG: 130/Downstream/26525
Upstream sequence
TGACACAGGAATACCAAGTATCAGGGGAGACAATATAACATTTTTGTGAACAAATTAGGTATTCTAAAATTTTCTTTTATATGTTCTATAAAATAATTAG
Downstream sequence
TAACCAAAAGCAGGCTACTTCTAAGAAATCTGTTGGGTTGGTTCattcatctgttctacaaatatttactgtgtacctacaatgtaccagccccttttgc
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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