Basic Information
VIS ID
TVIS30010135
Fusion event
HIV-ARHGAP21 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
chr10
Cytoband
p12.1
Reference genome
GRCh37/hg19
Start
24879506/24590577 (Hg38)
End
24879506/24590577 (Hg38)
Orient
+
Location type
Intronic
Target gene
ARHGAP21
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-21-5p ; hsa-mir-361-3p ; hsa-mir-183-5p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-4677-5p ; hsa-mir-190a-3p ; hsa-mir-22-5p ; hsa-mir-2116-5p ; hsa-mir-3182 ; hsa-mir-5011-5p ; hsa-mir-1277-5p
Nearest miRNA
hsa-mir-1265/Upstream/314796; hsa-mir-107/Downstream/3698681;
Nearest TSS
ENST00000439456/Upstream/535; ENST00000610158/Downstream/4459;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/894528, chr10-CpG: 209/Downstream/132091
Upstream sequence
GCCTGTTCAACATCAGTATAGATTTGCCTGTGTCAGTAAGAGCTGAAAAAACCCTTTAGGACTAAAACAAGAACTAGAGACAAAGGGAGAACATTGTGTA
Downstream sequence
AAACAACATGCTAGATTAGTGCAACAGTTTGGCAGGAGAAAGTTTTCATCAAAAGAGCCTAGAAGAACTAATACTTAACCAAGCATTAGGGTGGCAACAG
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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