Basic Information
VIS ID
TVIS30008215
Fusion event
HIV-GRAMD4 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
chr22
Cytoband
q13.31
Reference genome
GRCh37/hg19
Start
46992880/46596983 (Hg38)
End
46992880/46596983 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA22A
Target gene
GRAMD4
miRNAs that regulate target gene
hsa-mir-32-5p ; hsa-mir-149-5p ; hsa-mir-665 ; hsa-mir-944 ; hsa-mir-548f-5p ; hsa-mir-548g-5p ; hsa-mir-548x-5p ; hsa-mir-548aj-5p ; hsa-mir-4768-3p ; hsa-mir-548aw ; hsa-mir-527 ; hsa-mir-518a-5p ; hsa-mir-505-3p ; hsa-mir-2467-3p ; hsa-mir-1468-3p ; hsa-mir-140-3p ; hsa-mir-4257 ; hsa-mir-137 ; hsa-mir-367-3p ; hsa-mir-25-3p ; hsa-mir-363-3p ; hsa-mir-92a-3p ; hsa-mir-92b-3p
Nearest miRNA
hsa-let-7a-3/Upstream/483215; hsa-mir-12114/Downstream/1677381;
Nearest TSS
ENST00000624155/Upstream/19854; ENST00000490378/Downstream/23419;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/19271, chr22-CpG: 28/Downstream/21408
Nearby gene
GRAMD4(No orient, 29778)
Upstream sequence
CTCTTGGGGCCTTTTTTCCACCTGTCACTGAGACCTCCACTCCTTTGCAGAGCTTGGATGGCTGCAGGGCTGGCTTAGCTGCTGCCTCCAGGTGGGATCG
Downstream sequence
GGAGCCACCCTTCTCAGCGTCCATCCATCTGTCAACCTGCTGGACTGGTTAAACCAGGTCTCCACGCCTGCTTTCGATAAGTCCTGCCCTCCCCTGGGAA
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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