Basic Information
VIS ID
TVIS30010977
Fusion event
HIV-AFDN 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
q27
Reference genome
GRCh37/hg19
Start
168232002/167831322 (Hg38)
End
168232002/167831322 (Hg38)
Orient
-
Location type
Intronic
Target gene
AFDN
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-124-3p ; hsa-mir-346 ; hsa-mir-15b-5p ; hsa-mir-92a-3p
Nearest miRNA
hsa-mir-10398/Upstream/833410; hsa-mir-4644/Downstream/2499439;
Nearest TSS
ENST00000381078/Upstream/3687; ENST00000503021/Downstream/49159;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/3443, chr6-CpG: 17/Downstream/120514
Nearest cancer related gene
AFDN(OG, No orient, 0)
Upstream sequence
cactgtgcctggcTGTCAATAGTTGTATTTTTAAATATTGGTACTGCTGAAGATCTGTTTCTGGTGACTGATGTTTTAATGAGATGGATGATTGCCAATG
Downstream sequence
ATGTATTTTTAGTATTTATAGGCATCCCTATTTTTTATTTTTGATAAGTTGAATCTCATTGGTGGTTATAACCTTTTAAAAATCTTTTATTTCCTTTAAT
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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