Basic Information
VIS ID
TVIS30004399
Fusion event
HIV-DNAJC24 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
chr11
Cytoband
p13
Reference genome
GRCh37/hg19
Start
31439105/31417558 (Hg38)
End
31439105/31417558 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA11E
Target gene
DNAJC24
miRNAs that regulate target gene
hsa-mir-4684-5p ; hsa-mir-3165 ; hsa-mir-6880-5p ; hsa-mir-8071 ; hsa-mir-3675-3p ; hsa-mir-6759-5p ; hsa-mir-6796-5p ; hsa-mir-4296 ; hsa-mir-4322 ; hsa-mir-4265 ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-4769-5p ; hsa-mir-4654 ; hsa-mir-6778-5p ; hsa-mir-4648 ; hsa-mir-1233-5p ; hsa-mir-625-5p ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-1255b-5p ; hsa-mir-1255a ; hsa-mir-6744-5p ; hsa-mir-6794-5p ; hsa-mir-4716-3p ; hsa-mir-619-3p ; hsa-mir-490-3p
Nearest miRNA
hsa-mir-210/Upstream/2940010; hsa-let-7a-2/Downstream/3524279;
Nearest TSS
ENST00000527297/Upstream/546; ENST00000524747/Downstream/4507;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/47607, chr11-CpG: 33/Downstream/92026
Upstream sequence
gaaaacctttgagagtaataatttgttaaagaccaggataggttaccgagagagaGAGTTTGTTATAACCAGGTCAAAGCACTCTTTTTTTCTGGGTCAC
Downstream sequence
CCCCTGGGGACATGGAAATAGCTTTGTTATACAGAACTCTTTTTACATGTGGTGATAATTCATTGTAAACCTTTCTTTTCATAGGGGTGTGCTTTAAATA
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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