Basic Information
VIS ID
TVIS30012711
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
85218704/84991581 (Hg38)
End
85218704/84991581 (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/5124998; hsa-mir-10b/Downstream/792019;
Nearest TSS
ENST00000437798/Upstream/19380; ENST00000494519/Downstream/75766;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/19383, chr2-CpG: 218/Downstream/141252
Upstream sequence
AGTTTAAACTTTCTATCAGGTAGACATCATTTTGGTGGCCTGTGAACTTTGTCTTTTTTCCCACAGTTGCAGGAGAGTGGTAGAAAGCCCGATGTGTCTT
Downstream sequence
CTGTGCCAGTGCTACAGTGAGACAGGTCCAGGCCTGGAGATCACACTGTGGGAAATAGGCCAGTTTGGCATCTGGATAATGAATTAGTTTATTTTAGTCC
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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