Basic Information
VIS ID
TVIS30010843
Fusion event
HIV-NCAPG 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
chr4
Cytoband
p15.31
Reference genome
GRCh37/hg19
Start
17826439/17824816 (Hg38)
End
17826439/17824816 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA4D
Target gene
NCAPG
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-193b-3p ; hsa-mir-155-5p ; hsa-mir-1-3p ; hsa-mir-34a-5p ; hsa-mir-16-5p ; hsa-mir-421 ; hsa-mir-575 ; hsa-mir-6868-3p ; hsa-mir-664b-3p ; hsa-mir-579-3p ; hsa-mir-5696 ; hsa-mir-4536-5p ; hsa-mir-205-5p ; hsa-mir-153-5p ; hsa-mir-1250-3p ; hsa-mir-181d-5p ; hsa-mir-181b-5p ; hsa-mir-181c-5p ; hsa-mir-181a-5p
Nearest miRNA
hsa-mir-12113/Upstream/4196859; hsa-mir-12115/Downstream/2703459;
Nearest TSS
ENST00000502981/Upstream/1117; ENST00000511431/Downstream/137216;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/13212, chr4-CpG: 178/Downstream/195996
Upstream sequence
ATAATTTACTTTCACTGTCTGTGTGCCTATTTCCCTTCCATTCAAATAATTTCATTTTGTAGTCAGATATATTGTTTTGTTTTGTTTTTTTCTAAAATTG
Downstream sequence
TCTAGCAAACAGAATGTGTGCTATTTCTACCAGTATGTTTTTGCTCCATTATTCAATATATGGTGGATACTACTTGGAGTTTTATATAGAATTTTGATAC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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