Basic Information
VIS ID
TVIS30013867
Fusion event
HIV-GAB3 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
chrX
Cytoband
q28
Reference genome
GRCh37/hg19
Start
153967248/154738973 (Hg38)
End
153967248/154738973 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRAXE ; FRAXF
Target gene
GAB3
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-124-3p
Nearest miRNA
hsa-let-7f-2/Upstream/288587; hsa-mir-1184-1/Downstream/29623;
Nearest TSS
ENST00000429181/Upstream/42881; ENST00000475423/Downstream/12084;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/94855, chrX-CpG: 103/Downstream/11590
Upstream sequence
tggccacccagcatctgcacctttttctatatttggggaattcccaactccagttatagaagcaagaaatgatggatcctttcttttccagtctccatta
Downstream sequence
caatgaaggtacagATTCTGATCGTCTTTCCTGACAGTTTAACCTCAAGATTGCTTCGGCAGATCCCACAACAGTATTTTTTATCTGCCTAATTAAATCA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate