Basic Information
VIS ID
TVIS30010007
Fusion event
HIV-FMR1 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
chrX
Cytoband
q27.3
Reference genome
GRCh37/hg19
Start
147011259/147929740 (Hg38)
End
147011259/147929740 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRAXE ; FRAXF
Target gene
FMR1
miRNAs that regulate target gene
hsa-mir-101-3p ; hsa-mir-129-5p ; hsa-mir-221-3p ; hsa-mir-21-5p ; hsa-mir-130b-3p ; hsa-mir-374a-5p
Nearest miRNA
hsa-let-7f-2/Upstream/645012; hsa-mir-105-1/Downstream/2298264;
Nearest TSS
ENST00000429181/Upstream/2004; ENST00000475038/Downstream/462;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/17058, chrX-CpG: 21/Downstream/51411
Upstream sequence
TACCCTGTAGGTAGCTATCTCCCAAAAGTTTTCAATAGTTGACTTAAGAAAACTACTGACTTGTATGTAACTGAAATCAGGAAACCTGTAGTGTAGAGTG
Downstream sequence
GTTCCCCTGAATATGTCTCTTTTGGTAATCTAAGCTGTATTTCAGAAATGTACAGAAAAGGAGCTAAGCTTCTAAATGGATATAGCATATTTTGCATAAA
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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