Basic Information
VIS ID
TVIS30005712
Fusion event
HIV-EDRF1 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
chr10
Cytoband
q26.2
Reference genome
GRCh37/hg19
Start
127436129/125747560 (Hg38)
End
127436129/125747560 (Hg38)
Orient
+
Location type
Exonic
Fragile sites / regions
FRA10D ; FRA10F ; FRA10A ; FRA10B
Target gene
EDRF1
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-30d-5p ; hsa-mir-21-5p ; hsa-mir-32-5p ; hsa-mir-92a-3p ; hsa-mir-92b-3p
Nearest miRNA
hsa-mir-107/Upstream/714690; hsa-mir-202/Downstream/72180;
Nearest TSS
ENST00000439456/Upstream/859; ENST00000525524/Downstream/393;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/27563, chr10-CpG: 68/Downstream/26101
Upstream sequence
GTGTGTTTTATTTTAATGCAGTATTGGTATATGTTTAAGCTGAGTCAGAAATGTACACTGTTTTCTCCTTTGCAGGCTATTGATTACTATTTGAAAGCGC
Downstream sequence
TAAGGTCATTGGGAACACGAGACATACACCCAGCTGTTTGGGATTCAGTGAACTGGGAATTGTCCACTACTTACTTTACTATGGCAACTCTACAGCAAGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate