Basic Information
VIS ID
TVIS30001747
Fusion event
HIV-STAM 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
chr10
Cytoband
p12.33
Reference genome
GRCh37/hg19
Start
17702500/17660501 (Hg38)
End
17702500/17660501 (Hg38)
Orient
+
Location type
Exonic
Target gene
STAM
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-let-7e-5p ; hsa-mir-142-3p ; hsa-mir-3668 ; hsa-mir-573 ; hsa-mir-3616-5p ; hsa-mir-4635 ; hsa-mir-4670-3p ; hsa-mir-578 ; hsa-mir-526b-5p ; hsa-mir-4724-3p ; hsa-mir-1277-5p ; hsa-mir-1277-3p ; hsa-mir-4753-3p ; hsa-mir-190a-3p ; hsa-mir-4789-5p ; hsa-mir-3941 ; hsa-mir-376a-2-5p ; hsa-mir-3935 ; hsa-mir-130b-5p ; hsa-mir-3675-3p ; hsa-mir-5011-5p ; hsa-mir-4789-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-641 ; hsa-mir-3617-5p
Nearest miRNA
hsa-mir-1265/Upstream/3223840; hsa-mir-107/Downstream/184606;
Nearest TSS
ENST00000439456/Upstream/16293; ENST00000486183/Downstream/24284;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/16165, chr10-CpG: 122/Downstream/479695
Upstream sequence
GATTATGTATCTTTTAAAGATTTGAAAAATAATGTTTCTGCAATCCCCTTTACAATCTACAGAGAAAGCAACCAGCGAGATGAATACTGCTGAGGACTGG
Downstream sequence
GGCCTCATTTTGGATATCTGTGATAAAGTTGGTCAGTCTCGCACTGGGTAAGTATTTAGCGTTTCAAAGGATTTTTATTCTTTCTTTTTAAAAAACACGA
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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