Basic Information
VIS ID
TVIS30003009
Fusion event
HIV-ZNF253 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
chr19
Cytoband
p13.11
Reference genome
GRCh37/hg19
Start
19999781/19888972 (Hg38)
End
19999781/19888972 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
ZNF253
miRNAs that regulate target gene
hsa-mir-296-3p ; hsa-mir-4776-3p ; hsa-mir-7152-5p ; hsa-mir-3074-5p ; hsa-mir-4715-3p ; hsa-mir-3064-3p ; hsa-mir-3124-3p ; hsa-mir-1914-5p ; hsa-mir-3163 ; hsa-mir-570-5p ; hsa-mir-548ba ; hsa-mir-548ai ; hsa-mir-548ag ; hsa-mir-376b-3p ; hsa-mir-376a-3p ; hsa-mir-23c ; hsa-mir-23b-3p ; hsa-mir-23a-3p ; hsa-mir-130a-5p ; hsa-mir-4262 ; hsa-mir-181d-5p ; hsa-mir-181c-5p ; hsa-mir-181b-5p ; hsa-mir-181a-5p
Nearest miRNA
hsa-mir-10395/Upstream/453814; hsa-let-7e/Downstream/510300;
Nearest TSS
ENST00000633603/Upstream/10491; ENST00000592613/Downstream/6875;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/27918, chr19-CpG: 25/Downstream/12129
Upstream sequence
TCTTTGATAGGTAGGGCATATGCAGTGCCAATATACTTTCTTAGGATTTGGTTATTTTGGAAGGACTCCTTTTTATATGATAGTACAATTTTGCCGATGG
Downstream sequence
TATTATTTTCTGCAaaaattttttttgataaattcactggttatcttataagactatgcttataaatgacacatcatttttatcttgcagcacccaaaat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate