Basic Information
VIS ID
TVIS30015137
Fusion event
HIV-CSNK1G1 integration
Validated
Yes
Detection method
LM PCR
Data source
Curated
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Good
Reported year
2014
PubMed ID
24968937
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr15
Cytoband
q22.31
Reference genome
GRCh37/hg19
Start
64594919/64302720 (Hg38)
End
64594831/64302720 (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/431701; hsa-mir-11181/Downstream/459667;
Nearest TSS
ENST00000557528/Upstream/1997; ENST00000558442/Downstream/14276;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/139342, chr15-CpG: 48/Downstream/52995
Upstream sequence
CTTGTCTTTTGCCTAAATCCCTCAAATGATATTAGAAAGAAAGAGAAAAAAATATCATAATTGTTGGGAGTATGTCTATACGTGAGACTGTCAACTATAC
Downstream sequence
TTCCTTCCATTATAAGTTAATATGAGGACAGAGGCAGAATGTGTCTTGGCCCAATTCAGTCAATTTATAAGTATTCAATGAACTCACACATTTTCAAAAA
Target sequence
CTAAATCCCTCAAATGATATTAGAAAGAAAGAGAAAAAAATATCATAATTGTTGGGAGTATGTCTATACGTGAGACTGTCAACTATAC
Reference
Maldarelli, F., et al. Specific HIV integration sites are linked to clonal expansion and persistence of infected cells. Science,2014, 345(6193): 179-183.
Curate