Basic Information
VIS ID
TVIS30005779
Fusion event
HIV-PHF21A 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
chr11
Cytoband
p11.2
Reference genome
GRCh37/hg19
Start
46128713/46107162 (Hg38)
End
46128713/46107162 (Hg38)
Orient
+
Location type
Intronic
Target gene
PHF21A
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-221-3p ; hsa-mir-548c-3p ; hsa-mir-7855-5p ; hsa-mir-216a-5p ; hsa-mir-129-5p ; hsa-mir-1909-3p ; hsa-mir-4270 ; hsa-mir-4441 ; hsa-mir-4468 ; hsa-mir-6081 ; hsa-mir-6132 ; hsa-mir-6722-3p ; hsa-mir-6754-5p ; hsa-mir-6836-5p ; hsa-mir-759
Nearest miRNA
hsa-mir-129-2/Upstream/415386; hsa-let-7a-2/Downstream/269240;
Nearest TSS
ENST00000527297/Upstream/14957; ENST00000528480/Downstream/9416;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/183940, chr11-CpG: 65/Downstream/12666
Upstream sequence
tctccaagtgggtgtgggtaccctgaggaagggagccactgggaagaaattattacaacttatattttaaaatctcatccttttaaaaatttcaaatttc
Downstream sequence
ctatatgtttgacaacatgcataaaacactagtttagactatcatacatttaactggtaaCCATAATTTTTAAAAGTGTAGAGAGTACTGGTCAAGATGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate