Basic Information
VIS ID
TVIS30005525
Fusion event
HIV-GCSAML 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
q44
Reference genome
GRCh37/hg19
Start
247727811/247564509 (Hg38)
End
247727811/247564509 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1I
Target gene
GCSAML
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-186-5p
Nearest miRNA
hsa-mir-101-1/Upstream/362449; hsa-mir-3124/Downstream/1261868;
Nearest TSS
ENST00000473358/Upstream/15421; ENST00000320065/Downstream/23851;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/33310, chr1-CpG: 52/Downstream/74927
Upstream sequence
CTGTTTGCCATAGTATCTAGGTATAGTAATCATGTAATTACTCAAAATCGACAGTTATGAATAACAGGGCTCAGCCCCTGTGGACAAGTATACCTAAAGG
Downstream sequence
AAACTCTCTGTTTATTTTTACCCctaactttattgaggtataactgacaaataaaaatggcctatattcaaggtgtgcaatgtgatgatttgatatatgt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate