Basic Information
VIS ID
TVIS30008864
Fusion event
HIV-GRAMD2B 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
chr5
Cytoband
q23.2
Reference genome
GRCh37/hg19
Start
125797442/126461750 (Hg38)
End
125797442/126461750 (Hg38)
Orient
+
Location type
Intronic
Target gene
GRAMD2B
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-32-5p ; hsa-mir-92a-3p ; hsa-mir-15b-5p ; hsa-mir-141-5p ; hsa-mir-195-5p ; hsa-mir-424-5p ; hsa-mir-497-5p ; hsa-mir-545-3p ; hsa-mir-92b-3p ; hsa-mir-1468-3p ; hsa-mir-670-3p ; hsa-mir-548e-5p ; hsa-mir-548f-5p ; hsa-mir-548g-5p ; hsa-mir-548p ; hsa-mir-548x-5p ; hsa-mir-548aj-5p ; hsa-mir-4742-5p ; hsa-mir-6838-5p ; hsa-mir-8063 ; hsa-mir-3145-3p ; hsa-mir-3200-3p ; hsa-mir-33a-3p ; hsa-mir-409-3p ; hsa-mir-10a-3p
Nearest miRNA
hsa-mir-10397/Upstream/7307034; hsa-mir-103a-1/Downstream/2635938;
Nearest TSS
ENST00000502646/Upstream/38278; ENST00000505441/Downstream/595;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/38144, chr5-CpG: 37/Downstream/133159
Upstream sequence
ttagccagacatggtggcaggcacctgtaatcccagctacacgggaggctgaggcaggagaatcacttgaacctgggaggtggaggctgtagtgagcaga
Downstream sequence
gatcacgccattgcactccagcctgggtgacaagagtgaaactccatctcaaaaaaataaataaataaaaataaaaaTGCTCTCCCCTAATAGGTGAAGT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate