Basic Information
VIS ID
TVIS30001544
Fusion event
HIV-MACF1 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
p34.3
Reference genome
GRCh37/hg19
Start
39765901/39300229 (Hg38)
End
39765901/39300229 (Hg38)
Orient
-
Location type
Exonic
Target gene
MACF1
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-16-5p ; hsa-mir-296-3p ; hsa-mir-615-3p ; hsa-mir-125a-5p ; hsa-mir-222-3p ; hsa-mir-30d-5p ; hsa-mir-92a-3p ; hsa-let-7e-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p
Nearest miRNA
hsa-mir-12136/Upstream/1210900; hsa-mir-101-1/Downstream/1454126;
Nearest TSS
ENST00000473358/Upstream/14892; ENST00000528611/Downstream/85;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/194042, chr1-CpG: 115/Downstream/108117
Upstream sequence
GAGTATTCAGTTTTCTTTGTTGACTTAGTCACCCTGAGTAGCAGCATTAATGTCATTTTGTTTTTCTTATCATTTTGTAGGATGAAAAGGAGCAGCTTAT
Downstream sequence
ACAGTCCAAGAGTTCCGTTGCCAGTCTCGTTGGGAGATCAAAAACCATCGTTCAGCTAAAACCACGCAGTCCAGACCATGTGTTAAAGAACACCATTTCT
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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