Basic Information
VIS ID
TVIS30008962
Fusion event
HIV-GMDS 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
chr6
Cytoband
p25.3
Reference genome
GRCh37/hg19
Start
1658894/1658660 (Hg38)
End
1658894/1658660 (Hg38)
Orient
+
Location type
Intronic
Target gene
GMDS
miRNAs that regulate target gene
hsa-mir-218-5p ; hsa-mir-302c-5p ; hsa-mir-1231 ; hsa-mir-4423-3p ; hsa-mir-3143 ; hsa-mir-496 ; hsa-mir-3622b-5p ; hsa-mir-5588-5p ; hsa-mir-4799-3p ; hsa-mir-4720-5p ; hsa-mir-6868-5p ; hsa-mir-3128 ; hsa-mir-654-3p ; hsa-mir-3622a-5p ; hsa-mir-5582-5p ; hsa-mir-4803 ; hsa-mir-3196 ; hsa-mir-6816-5p ; hsa-mir-3180-3p ; hsa-mir-6787-5p ; hsa-mir-3180 ; hsa-mir-663a ; hsa-mir-1908-5p ; hsa-mir-744-5p ; hsa-mir-6812-3p ; hsa-mir-1307-3p ; hsa-mir-3150b-5p ; hsa-mir-3150a-5p
Nearest miRNA
hsa-mir-6720/Upstream/268249; hsa-mir-10398/Downstream/1195371;
Nearest TSS
ENST00000381078/Upstream/32472; ENST00000530833/Downstream/67817;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/33427, chr6-CpG: 106/Downstream/586224
Upstream sequence
ACATCAGTCTTTCTGAATGGGTAATGATATTGTTTTCTTAAAGAATACTTTCACAGAAAAATAAAAAAATACTTCTAGAGTAAGATTTAAAAAATCAACA
Downstream sequence
TATACATTTGGAATTATTTGTCTCAAATCACAGACTCTAGAATATTTAAGTTGCTTGAGACTATTTAGCTCGGCTTTCTGCTCACAGACAGGAACTGAGG
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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