Basic Information
VIS ID
TVIS30003403
Fusion event
HIV-DDX17 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
chr22
Cytoband
q13.1
Reference genome
GRCh37/hg19
Start
38900832/38504827 (Hg38)
End
38900832/38504827 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA22A
Target gene
DDX17
miRNAs that regulate target gene
hsa-mir-145-5p ; hsa-mir-155-5p ; hsa-mir-744-5p ; hsa-mir-18a-3p ; hsa-mir-331-3p ; hsa-mir-106b-5p ; hsa-mir-27b-3p ; hsa-mir-92a-3p ; hsa-let-7b-5p ; hsa-mir-378c ; hsa-mir-1277-5p ; hsa-mir-5011-5p ; hsa-mir-432-3p ; hsa-mir-377-3p ; hsa-mir-218-5p ; hsa-mir-539-3p ; hsa-mir-6883-3p ; hsa-mir-3606-5p ; hsa-mir-3613-5p ; hsa-mir-142-3p ; hsa-mir-6073 ; hsa-mir-1266-3p ; hsa-mir-454-5p ; hsa-mir-190a-3p ; hsa-mir-5690
Nearest miRNA
hsa-mir-1286/Upstream/515974; hsa-let-7a-3/Downstream/2309056;
Nearest TSS
ENST00000624155/Upstream/9781; ENST00000475924/Downstream/1074;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/36569, chr22-CpG: 145/Downstream/721
Upstream sequence
AAATATCGTTAACAGAGCGCCTACTACAGTGAGACTAttacatccattatctcttaattcctgacaacacagcaaagtaaaggcaattatcacgttcctc
Downstream sequence
agaggaaacaggctcacaaaaggtaggatcttgaccaaggtcacacaCACACATATCAAGTGGCGTCACGTAACTCTTTGGGGAAGCGGGGGGGTCGGGG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate