Basic Information
VIS ID
TVIS30008246
Fusion event
HIV-CNTN4 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
chr3
Cytoband
p26.2
Reference genome
GRCh37/hg19
Start
2948295/2906611 (Hg38)
End
2948295/2906611 (Hg38)
Orient
-
Location type
Intronic
Target gene
CNTN4
miRNAs that regulate target gene
hsa-mir-6736-5p ; hsa-mir-4701-3p ; hsa-mir-1262 ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-4504 ; hsa-mir-661 ; hsa-mir-873-3p ; hsa-mir-6776-5p ; hsa-mir-6742-3p ; hsa-mir-6827-3p ; hsa-mir-340-3p ; hsa-mir-5586-3p
Nearest miRNA
hsa-let-7g/Downstream/2343566;
Nearest TSS
ENST00000440867/Upstream/5897; ENST00000484686/Downstream/133013;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/806511, chr3-CpG: 95/Downstream/220029
Upstream sequence
TAAAGCATATATCGGAAAATTTAAACTTGAAAAAGAAAGATGGTggccgggcacggtggctcacagctgtaatcccagcactttgggaggccgaggcagg
Downstream sequence
cggatcacctgaggttgggagatcgagcccagcctagccaaaatggtgaaaccccatatctactaaaaatatatatatataaattagccgagcatggtgg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate