Basic Information
VIS ID
TVIS30012710
Fusion event
HIV-KCMF1 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
chr2
Cytoband
p11.2
Reference genome
GRCh37/hg19
Start
85214960/84987837 (Hg38)
End
85214960/84987837 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2S ; FRA2L
Target gene
KCMF1
miRNAs that regulate target gene
hsa-mir-210-3p ; hsa-mir-5698 ; hsa-mir-143-5p ; hsa-mir-4284 ; hsa-mir-6722-5p ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-6778-3p ; hsa-mir-6499-3p ; hsa-mir-4772-3p ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-1304-3p ; hsa-mir-6741-3p ; hsa-mir-1281 ; hsa-mir-4485-5p ; hsa-mir-5693 ; hsa-mir-6890-3p
Nearest miRNA
hsa-mir-1285-2/Upstream/5121254; hsa-mir-10b/Downstream/795763;
Nearest TSS
ENST00000437798/Upstream/15636; ENST00000494519/Downstream/79510;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/15639, chr2-CpG: 218/Downstream/144996
Upstream sequence
ttctaaggatgaaagcatagagaagggagaagTATGTTCATATTTAGAAGCAAGAGCAGAGGAGTCAGGGTCAGCCCAATCAGAGAGCTAAGAGGAGGAC
Downstream sequence
CCTGCTTGTGTATTGACTTGGAAGACATCTTTTATAGTATAATAGCACTTGTCATGTGAGTGTTGACTTACTTGTCTGTCTGCTTTAAAAATGTAGGCTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate