Basic Information
VIS ID
TVIS30005052
Fusion event
HIV-DFFB 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
p36.32
Reference genome
GRCh37/hg19
Start
3779486/3862922 (Hg38)
End
3779486/3862922 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
DFFB
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-421 ; hsa-mir-665 ; hsa-mir-3915 ; hsa-mir-4533 ; hsa-mir-7160-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-3928-3p ; hsa-mir-589-5p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-6876-5p ; hsa-mir-4476 ; hsa-mir-1255b-2-3p ; hsa-mir-4428 ; hsa-mir-1285-3p ; hsa-mir-1292-3p ; hsa-mir-196a-3p ; hsa-mir-3187-5p ; hsa-mir-508-5p ; hsa-mir-5189-5p ; hsa-mir-612 ; hsa-mir-6512-3p ; hsa-mir-661 ; hsa-mir-6720-5p ; hsa-mir-6849-3p ; hsa-mir-6860 ; hsa-mir-766-3p ; hsa-mir-939-3p
Nearest miRNA
hsa-mir-12136/Upstream/302132; hsa-mir-101-1/Downstream/1999750;
Nearest TSS
ENST00000473358/Upstream/5318; ENST00000481945/Downstream/4741;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/4117, chr1-CpG: 49/Downstream/11378
Upstream sequence
aagaaaaaacagataaattgggcttcatcaacattaagaactctggcccgggcacggtggctcaagcctgtaatcccagcactttgggaggccgagacgg
Downstream sequence
gcagatcacttgaggtcaggagttgagacaagcctggccaacatggtgaaaccccgtctctactaaaaatacaaaaattagccgggcgtggtggcaggcg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate