Basic Information
VIS ID
TVIS30011991
Fusion event
HIV-CSNK1G1 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
chr15
Cytoband
q22.31
Reference genome
GRCh37/hg19
Start
64539783/64247584 (Hg38)
End
64539783/64247584 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA15A
Target gene
CSNK1G1
miRNAs that regulate target gene
hsa-mir-130b-3p ; hsa-mir-93-5p ; hsa-mir-30a-5p ; hsa-mir-26b-5p ; hsa-mir-19b-3p ; hsa-mir-222-3p ; hsa-mir-653-3p ; hsa-mir-4420 ; hsa-mir-181b-3p ; hsa-mir-181b-2-3p ; hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-4533 ; hsa-mir-5192 ; hsa-mir-6837-3p ; hsa-mir-3607-3p ; hsa-mir-1208 ; hsa-mir-6760-3p ; hsa-mir-4428 ; hsa-mir-30d-5p ; hsa-mir-30c-5p ; hsa-mir-30e-5p ; hsa-mir-30b-5p ; hsa-mir-1257 ; hsa-mir-2113 ; hsa-mir-3611 ; hsa-mir-425-5p ; hsa-mir-5010-3p ; hsa-mir-758-3p
Nearest miRNA
hsa-mir-10393/Upstream/376565; hsa-mir-11181/Downstream/514803;
Nearest TSS
ENST00000557528/Upstream/42659; ENST00000558442/Downstream/52883;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/84206, chr15-CpG: 48/Downstream/108131
Upstream sequence
TTGAAAATCTTGGTGGTAAAACTGTAATCAAGAAACAAAGCTTGAAAAGTGTGACCACTCACTAGAAAACAAAGTGGAATGGAAGAGAAAGAGTTAGAGA
Downstream sequence
TCACACAAGGAAAAGCAGAGACAATGTGGAAGACCTCCAACCAGAACCACATTCACAATTACCCAGTGCTGTCATTTTTGTTCTATCTCTACATAATTAG
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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