Basic Information
VIS ID
TVIS30013020
Fusion event
HIV-CCDC134 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
q13.2
Reference genome
GRCh37/hg19
Start
42213787/41817783 (Hg38)
End
42213787/41817783 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA22A
Target gene
CCDC134
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-let-7b-5p ; hsa-mir-6862-3p ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-1236-3p ; hsa-mir-6515-3p ; hsa-mir-4267 ; hsa-mir-500b-3p ; hsa-mir-3943 ; hsa-mir-6875-3p ; hsa-mir-6749-3p ; hsa-mir-4778-3p ; hsa-mir-877-3p ; hsa-mir-1306-5p ; hsa-mir-1228-3p
Nearest miRNA
hsa-mir-1281/Upstream/564733; hsa-let-7a-3/Downstream/83161;
Nearest TSS
ENST00000624155/Upstream/17104; ENST00000464119/Downstream/15296;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/16826, chr22-CpG: 157/Downstream/14720
Upstream sequence
attgcaccactgcactccagcctgggcaacagagcaagactctgtcttaaataaataaataaataaataaataaataaataaataaaaagagaggggtag
Downstream sequence
gtatctttgatctgccagtttgtaatctccagatgaccaggacactgacaatagtcagtaagaatataacatgcatggctgttaggaaggagtgtcatcc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate