Basic Information
VIS ID
TVIS30007452
Fusion event
HIV-KXD1 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
chr19
Cytoband
p13.11
Reference genome
GRCh37/hg19
Start
18675785/18564975 (Hg38)
End
18675785/18564975 (Hg38)
Orient
+
Location type
Exonic
Fragile sites / regions
FRA19B
Target gene
KXD1
miRNAs that regulate target gene
hsa-mir-505-5p ; hsa-mir-193b-3p ; hsa-mir-378a-5p ; hsa-mir-10a-5p ; hsa-let-7b-5p ; hsa-mir-6807-5p ; hsa-mir-3940-3p
Nearest miRNA
hsa-mir-10395/Upstream/178341; hsa-let-7e/Downstream/870088;
Nearest TSS
ENST00000633603/Upstream/2884; ENST00000599256/Downstream/4400;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/6848, chr19-CpG: 72/Downstream/6589
Upstream sequence
CGCTTTGAGAAGACCAATGAGATGCTGCTCAACTTCAACAACCTGTCCAGTGCCCGCCTGCAGCAGATGAGCGAACGCTTCCTGCACCACACGAGGACCC
Downstream sequence
TAGTAGAGATGAAACGGGACCTGGACAGCATCTTCCGCCGTATCAGGTGGGTGCTCAGTGCCACCCCAGCCCAGCTGACCTCTGCCTCCACCTCCCCATC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate