Basic Information
VIS ID
TVIS30006126
Fusion event
HIV-NELL2 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
chr12
Cytoband
q12
Reference genome
GRCh37/hg19
Start
44931301/44537518 (Hg38)
End
44931301/44537518 (Hg38)
Orient
-
Location type
Intronic
Target gene
NELL2
miRNAs that regulate target gene
hsa-mir-297 ; hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-567 ; hsa-mir-769-5p ; hsa-mir-3185 ; hsa-mir-4307 ; hsa-mir-511-3p ; hsa-mir-5011-5p ; hsa-mir-6507-5p ; hsa-mir-5571-3p ; hsa-mir-4266 ; hsa-mir-331-3p ; hsa-mir-6810-3p ; hsa-mir-6801-3p ; hsa-mir-6729-3p ; hsa-mir-4779 ; hsa-mir-4695-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/2213659; hsa-let-7i/Downstream/2650294;
Nearest TSS
ENST00000382841/Upstream/4897; ENST00000548424/Downstream/166262;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/701157, chr12-CpG: 86/Downstream/338529
Upstream sequence
GCTCTTATATTGGATAAAAAAGGAAAGGAAATCCATCTCTTTTTTTTGGATGAGTCTACTGTTTTTAATGACAGTCACATAGAGTACTCTTTTTCATACT
Downstream sequence
ATTTATCATTAATAAAAATATGACATCATTTCTCATTTAAAAATAGGCACTTGTTCTATCTATATCATCATTACATGCACTGTAGTTAAATTATATTGAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate