Basic Information
VIS ID
TVIS30010998
Fusion event
HIV-SEPTIN7 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
chr7
Cytoband
p14.2
Reference genome
GRCh37/hg19
Start
35882778/35843168 (Hg38)
End
35882778/35843168 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA7C
Target gene
SEPTIN7
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-429 ; hsa-mir-200a-3p ; hsa-mir-200c-3p ; hsa-mir-141-3p ; hsa-mir-200b-3p ; hsa-mir-26b-5p ; hsa-mir-34a-5p ; hsa-mir-135a-3p ; hsa-mir-296-3p ; hsa-mir-127-3p ; hsa-mir-587 ; hsa-mir-5581-3p ; hsa-mir-223-5p ; hsa-mir-4716-5p ; hsa-mir-511-3p
Nearest miRNA
hsa-mir-1183/Upstream/902334; hsa-mir-10399/Downstream/1076189;
Nearest TSS
ENST00000635602/Upstream/10370; ENST00000634700/Downstream/3592;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/41187, chr7-CpG: 87/Downstream/124233
Upstream sequence
attatcttccatatgtgtacttatttgatcaatccCCCTGTAATTAATCCATCACCTCCTTCAGGTTCTTCCCTTTCTTCTCTGAAAAATATTAGGGAAG
Downstream sequence
AACCAGAGGGAGGTAATGGATTAGTTAATTGCAGGGGGATTAGTGTAATTAAGGGGGAGGCAGTGGCCCTGCTTACCTCTCTTGTGCTGTGATGTCTTAT
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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