Basic Information
VIS ID
TVIS30003407
Fusion event
HIV-GTPBP1 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
q13.1
Reference genome
GRCh37/hg19
Start
39116296/38720291 (Hg38)
End
39116296/38720291 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA22A
Target gene
GTPBP1
miRNAs that regulate target gene
hsa-mir-103a-3p ; hsa-mir-16-5p ; hsa-mir-423-5p ; hsa-mir-484 ; hsa-mir-331-3p ; hsa-mir-100-5p ; hsa-mir-767-5p ; hsa-mir-3130-3p ; hsa-mir-8485 ; hsa-mir-1976 ; hsa-mir-3976 ; hsa-mir-6856-5p ; hsa-mir-6758-5p ; hsa-mir-483-3p ; hsa-mir-1273f ; hsa-mir-1343-5p ; hsa-mir-3150a-3p ; hsa-mir-3175 ; hsa-mir-491-5p ; hsa-mir-5004-5p ; hsa-mir-6763-5p ; hsa-mir-6801-5p ; hsa-mir-6825-5p ; hsa-mir-7106-5p ; hsa-mir-7154-3p ; hsa-mir-92a-2-5p ; hsa-mir-939-5p ; hsa-mir-4524a-3p
Nearest miRNA
hsa-mir-1286/Upstream/731438; hsa-let-7a-3/Downstream/2093592;
Nearest TSS
ENST00000624155/Upstream/13771; ENST00000475959/Downstream/4885;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/13628, chr22-CpG: 132/Downstream/35161
Upstream sequence
tgctgggattacaggtgtgagccaccgcgcctggcctttattttctttgagatggagtctcactcttgcccaggctggagtgcaatggcgcaatcttggc
Downstream sequence
tcactgcaacctccgcctccttggttcaagcgattctcctgcctcagcctcctgagtagctgggattacaggcaactgccaccacatgcagctaattttt
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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