Basic Information
VIS ID
TVIS30009886
Fusion event
HIV-PUDP 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
chrX
Cytoband
p22.31
Reference genome
GRCh37/hg19
Start
6990456/7072415 (Hg38)
End
6990456/7072415 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRAXB
Target gene
PUDP
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-98-5p ; hsa-mir-346 ; hsa-mir-106a-5p ; hsa-mir-17-5p
Nearest miRNA
hsa-mir-3690-1/Upstream/688452; hsa-let-7f-2/Downstream/75445;
Nearest TSS
ENST00000429181/Upstream/350871; ENST00000217961/Downstream/75710;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/844550, chrX-CpG: 117/Downstream/75237
Upstream sequence
ATACCGAATATACACAAAACTTAGGCTGGCAAAATGAGTCTACTCTATCTGTTTATGCAGTTTAACATGTATAACTTTCTTGAAAATAGAACAGAAAAAC
Downstream sequence
AAAAACAAAAATAATTTTTTTAAAACCTGAAATTCAGCTCCTAAAACAACACTAACAAGTACAAGAAAACTAAAACACGCAAAGTAGTGATGGCTAGGCT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate