Basic Information
VIS ID
TVIS30008643
Fusion event
HIV-SEC24D 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
q26
Reference genome
GRCh37/hg19
Start
119685004/118763849 (Hg38)
End
119685004/118763849 (Hg38)
Orient
+
Location type
Intronic
Target gene
SEC24D
miRNAs that regulate target gene
hsa-mir-605-5p ; hsa-mir-335-5p ; hsa-mir-124-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-129-5p ; hsa-mir-511-5p ; hsa-mir-6830-3p ; hsa-mir-6878-3p ; hsa-mir-640 ; hsa-mir-203b-3p ; hsa-mir-7158-3p ; hsa-mir-378a-5p ; hsa-mir-6744-3p ; hsa-mir-4757-5p ; hsa-mir-4312 ; hsa-mir-6821-3p ; hsa-mir-6790-3p ; hsa-mir-4680-5p ; hsa-mir-4635 ; hsa-mir-3663-5p ; hsa-mir-3653-5p ; hsa-mir-212-5p ; hsa-mir-6747-3p ; hsa-mir-6513-3p ; hsa-mir-8079 ; hsa-mir-1245a ; hsa-mir-6131
Nearest miRNA
hsa-mir-12113/Upstream/4106995; hsa-mir-1305/Downstream/6743410;
Nearest TSS
ENST00000502981/Upstream/9729; ENST00000434046/Downstream/2714;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/78194, chr4-CpG: 56/Downstream/72192
Upstream sequence
ctgatcaactacctatcccatggcagatagtgtggtaaatgtcataaagatgacgaggatatcagaatctaagaagacggcagacatataagaaggttta
Downstream sequence
aattccatggggataaatgctaaaatagagatatagaccaaattccgtgaaaaaacagaagctatagtaaataattaccatgataaagacagagaaagtt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate