Basic Information
VIS ID
TVIS30008557
Fusion event
HIV-SEL1L3 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
p15.2
Reference genome
GRCh37/hg19
Start
25857893/25856271 (Hg38)
End
25857893/25856271 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA4D
Target gene
SEL1L3
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-130b-3p ; hsa-mir-19b-3p ; hsa-mir-93-3p ; hsa-let-7a-5p ; hsa-let-7g-3p ; hsa-let-7a-2-3p ; hsa-mir-486-5p ; hsa-mir-339-5p ; hsa-mir-6866-3p ; hsa-mir-188-5p ; hsa-mir-4789-3p ; hsa-mir-8485 ; hsa-mir-520f-5p ; hsa-mir-6780a-3p ; hsa-mir-6881-3p ; hsa-mir-7111-3p ; hsa-mir-1236-3p ; hsa-mir-877-3p ; hsa-mir-6769b-3p ; hsa-mir-4723-3p ; hsa-mir-3183
Nearest miRNA
hsa-mir-12113/Upstream/1335981; hsa-mir-1243/Downstream/2963311;
Nearest TSS
ENST00000502981/Upstream/77068; ENST00000522137/Downstream/4360;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/179761, chr4-CpG: 123/Downstream/5867
Upstream sequence
TCTCATCCCTCGACCCTCTGCTGAATTCCTGTTCATCTGGCAAGTTCATCCATGTTACTGTGATAATGAAAAAATACTGAGGTAAGGTCACGTATCTGTA
Downstream sequence
TTTCTACACCAGCTTTGTGGAGATAATGCCTTAAAAGCACAGTCTAAATGCACCGCAACTCTAAGCAAGATATTTGGGGTGAAGAGGGGCATCTGTGCCC
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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