Basic Information
VIS ID
TVIS30004147
Fusion event
HIV-ZNF250 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
chr8
Cytoband
q24.3
Reference genome
GRCh37/hg19
Start
146121492/144896107 (Hg38)
End
146121492/144896107 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA8D
Target gene
ZNF250
miRNAs that regulate target gene
hsa-mir-6516-5p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-620 ; hsa-mir-1270 ; hsa-mir-1273e ; hsa-mir-455-3p ; hsa-mir-6880-5p ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-6851-5p ; hsa-mir-3689d ; hsa-mir-4683 ; hsa-mir-6499-3p ; hsa-mir-6134 ; hsa-mir-4487 ; hsa-mir-558 ; hsa-mir-3160-3p ; hsa-mir-5186 ; hsa-mir-3192-5p ; hsa-mir-7851-3p ; hsa-mir-490-3p
Nearest miRNA
hsa-mir-10400/Upstream/104116;
Nearest TSS
ENST00000518652/Upstream/42371; ENST00000530223/Downstream/5316;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/42676, chr8-CpG: 169/Downstream/4596
Upstream sequence
caaaaaaaaaaaaaaaaaaaaaaTCCTATCACAAAGTCTGATTGTATTCTGGTAATAAATGAACAAAAATggctgggcatggtgactcacacctataatc
Downstream sequence
ccagtactttgggaggccaaggtgggagaattgcttgagttcaggagttcaagaacaccctggacaatatagtgagaccccgtctctataaaaaaattta
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate