Basic Information
VIS ID
TVIS30010069
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
39749535/39283863 (Hg38)
End
39749535/39283863 (Hg38)
Orient
+
Location type
Intronic
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/1194534; hsa-mir-101-1/Downstream/1470492;
Nearest TSS
ENST00000473358/Upstream/737; ENST00000472385/Downstream/228;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/177676, chr1-CpG: 115/Downstream/124483
Upstream sequence
ATTCAAGATGAGGAAGTGTTTTATCAGTCACTTATGTATCAGCTTGATTAGGTAGATCATGGCTCTTTTCAGAATATTTTTAGTAGCTTGGTTTGTAGCC
Downstream sequence
TTTCTTAGTGTCAGGAAATTGAACCCCATCCTGAGAGCCCTTGAGGAGCTTTGAAGCTAGTACTGTGAGCATTAAACTGAGCAGCATCTAGGCAATTAAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate