Basic Information
VIS ID
TVIS30006569
Fusion event
HIV-WHAMMP1 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
chr15
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
32818033/32525832 (Hg38)
End
32818033/32525832 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
WHAMMP1
Nearest miRNA
hsa-mir-1268a/Upstream/1460691; hsa-mir-10393/Downstream/1856237;
Nearest TSS
ENST00000557528/Upstream/70198; ENST00000561999/Downstream/10215;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/90655, chr15-CpG: 109/Downstream/10299
Upstream sequence
gaaatttagaaatcagaaaataatacggaggtgaggaaaaatgtatctcagatgattgttgtattattacgtagcaaaatgtaaaatatacattgtcctt
Downstream sequence
gacccaataattccatccttagatatttattctaaggagataatctgtcctatactcaaaaagacatgtgtaaaggaaagttcactacactactgttcaa
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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