Basic Information
VIS ID
TVIS30011172
Fusion event
HIV-DNAJC16 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
p36.21
Reference genome
GRCh37/hg19
Start
15897841/15571346 (Hg38)
End
15897841/15571346 (Hg38)
Orient
+
Location type
UTR3
Fragile sites / regions
FRA1A
Target gene
DNAJC16
miRNAs that regulate target gene
hsa-mir-421 ; hsa-let-7c-5p ; hsa-mir-21-5p ; hsa-mir-578 ; hsa-mir-526b-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-3934-3p ; hsa-mir-6778-3p ; hsa-mir-4252 ; hsa-mir-627-3p ; hsa-mir-3124-3p ; hsa-mir-767-3p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-6832-3p ; hsa-mir-1273g-3p
Nearest miRNA
hsa-mir-12136/Upstream/2992323; hsa-mir-101-1/Downstream/1287603;
Nearest TSS
ENST00000473358/Upstream/3187; ENST00000546927/Downstream/13764;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/44178, chr1-CpG: 62/Downstream/13247
Upstream sequence
TCCCAATCAATTTGCAGCTGCCATCATTACATAAATATTTTTCTGTTATAAAAAGAAGTGTGATCTGTTTTTTTAGTGATTTCCTTTGTTTGGGAATAGA
Downstream sequence
GATTGGAAGCACATACTCAGACCTGTTTTGTTAACTAGAATTCTTTAAAAGCTGATGCCAAACATCTTTACAGAGGAACTGTAGTTCACATCCACCTGTC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate