Basic Information
VIS ID
TVIS30001611
Fusion event
HIV-GDAP2 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
chr1
Cytoband
p12
Reference genome
GRCh37/hg19
Start
118436148/117893526 (Hg38)
End
118436148/117893526 (Hg38)
Orient
+
Location type
Intronic
Target gene
GDAP2
miRNAs that regulate target gene
hsa-mir-98-5p ; hsa-mir-18a-5p ; hsa-mir-6083 ; hsa-mir-889-3p ; hsa-mir-3662 ; hsa-mir-8061 ; hsa-mir-4760-5p ; hsa-mir-3144-3p ; hsa-mir-4307 ; hsa-mir-3143 ; hsa-mir-875-5p ; hsa-mir-577 ; hsa-mir-543
Nearest miRNA
hsa-mir-101-1/Upstream/798798; hsa-mir-1182/Downstream/27957061;
Nearest TSS
ENST00000473358/Upstream/5793; ENST00000471680/Downstream/5604;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/286480, chr1-CpG: 73/Downstream/35691
Upstream sequence
ACAAGGCAGTGCTACGAAAGGAGTGACATAAAACTATTGCCAATCCATGTGACCTTTAGTTTCGCTACTGATGGAAGAATTGAAGGCTTTTGAAAAGATA
Downstream sequence
TTTACTAACTAAAAACCTACTTACTTTTACATTTGTTCAACCTAATTAATTAACATAATCAACAGAAGCCAGACTCAATATGTGAAAATAAAAGCCCGAT
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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