Basic Information
VIS ID
TVIS30010579
Fusion event
HIV-ELAVL1 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
chr19
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
8057899/7993015 (Hg38)
End
8057899/7993015 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
ELAVL1
miRNAs that regulate target gene
hsa-mir-519b-3p ; hsa-mir-519c-3p ; hsa-mir-519a-3p ; hsa-mir-125a-5p ; hsa-mir-340-5p ; hsa-mir-93-5p ; hsa-mir-9-5p ; hsa-mir-146a-5p ; hsa-mir-218-5p ; hsa-mir-6817-5p ; hsa-mir-4769-3p ; hsa-mir-548s ; hsa-mir-3926 ; hsa-mir-522-3p ; hsa-mir-224-3p ; hsa-mir-4694-3p ; hsa-mir-8063 ; hsa-mir-3121-3p ; hsa-mir-4668-3p ; hsa-mir-296-5p ; hsa-mir-23c ; hsa-mir-139-3p ; hsa-mir-29b-3p
Nearest miRNA
hsa-mir-1227/Upstream/375510; hsa-let-7e/Downstream/396275;
Nearest TSS
ENST00000633603/Upstream/11903; ENST00000599756/Downstream/9188;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/29079, chr19-CpG: 126/Downstream/12025
Nearest cancer related gene
ELAVL1(OG, No orient, 0)
Upstream sequence
caggcatgtgccaccacgcccggctgatttttaaaactttttgtagagatggtatcttgcccaggttaattttgaactcctggcctcaagtaatccttcc
Downstream sequence
atctcaccctcccaaagtgctaggattacgggcatgagccactgtgtccggcTTCTTTCTATTTAAAAAAAATTTTATTCAGTCAATACTTCATTGTAAT
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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