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Viral Integration Site DataBase
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TVIS30013249
Basic Information
VIS ID
TVIS30013249
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
119669998/118748843 (Hg38)
End
119669998/118748843 (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/4091989; hsa-mir-1305/Downstream/6758416;
Nearest TSS
ENST00000502981/Upstream/9620;
ENST00000434046/Downstream/5277;
Nearest CpG islands
None/Target,
chr4-CpG: 46/Upstream/63188
,
chr4-CpG: 56/Downstream/87198
Upstream sequence
ATCACAACTTTAAGTATCCTACTGTCTTCTCCTGTAGATCAAGGGCTCCCTGAAAAGGAAGGACCTTGATTTTGTGTTTCTCCAACCCCCATTGAGACTA
Downstream sequence
CCACCTTCCATTCTATGGTGCTCCATAAACCTTTGTGCAAGGAGCATTGTTTGTGATGCATTCCCCTGCAATCACACTTAGGTACGTATTATGGATAATT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Sample Information
×
Sample name
Resting CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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