Basic Information
VIS ID
TVIS30004323
Fusion event
HIV-CA6 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
chr1
Cytoband
p36.23
Reference genome
GRCh37/hg19
Start
9019147/8959088 (Hg38)
End
9019147/8959088 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
CA6
miRNAs that regulate target gene
hsa-mir-4755-3p ; hsa-mir-593-5p ; hsa-mir-4786-5p ; hsa-mir-1972 ; hsa-mir-4433a-3p ; hsa-mir-4768-3p ; hsa-mir-4459 ; hsa-mir-6500-3p ; hsa-mir-3614-5p ; hsa-mir-6736-5p ; hsa-mir-4701-3p ; hsa-mir-1262 ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-542-3p ; hsa-mir-661 ; hsa-mir-873-3p ; hsa-mir-6776-5p ; hsa-mir-20a-3p ; hsa-mir-6742-3p ; hsa-mir-6849-3p ; hsa-mir-759 ; hsa-mir-5586-3p ; hsa-mir-6807-3p ; hsa-mir-217 ; hsa-mir-4797-5p ; hsa-mir-1273g-3p ; hsa-mir-4252 ; hsa-mir-455-3p ; hsa-mir-5694 ; hsa-mir-6499-3p ; hsa-mir-6516-5p ; hsa-mir-6807-5p
Nearest miRNA
hsa-mir-12136/Upstream/92498; hsa-mir-101-1/Downstream/192580;
Nearest TSS
ENST00000473358/Upstream/13201; ENST00000634966/Downstream/67257;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/79801, chr1-CpG: 93/Downstream/80133
Upstream sequence
CAGCCTTCGTTGAGGTAAGCAGAAACTACCCATGTGTGTCTGTATTTGAAGTTATAGGTTGATGTCCAAACAAGGTGTGAAGTCTAGTTGAACAGTCTTC
Downstream sequence
TTTATTATCACTCTTCATCTTTTCCTGAGCTCACAGTTCTTGGAAACATTGACTCGATGGAAGATCACTGTGCTCCTTCCGTGCTGTCAATCTCCGGACC
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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