Basic Information
VIS ID
TVIS30004682
Fusion event
HIV-LDLRAD4 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
chr18
Cytoband
p11.21
Reference genome
GRCh37/hg19
Start
13306589/13306590 (Hg38)
End
13306589/13306590 (Hg38)
Orient
-
Location type
Intronic
Target gene
LDLRAD4
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-124-3p ; hsa-mir-3658 ; hsa-mir-7856-5p ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-7110-3p ; hsa-mir-6845-3p ; hsa-mir-6769b-3p ; hsa-mir-4723-3p ; hsa-mir-3183 ; hsa-mir-3972 ; hsa-mir-1202 ; hsa-mir-3194-5p ; hsa-mir-6836-5p ; hsa-mir-6132 ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-6752-3p ; hsa-mir-4530 ; hsa-mir-3918 ; hsa-mir-761 ; hsa-mir-3619-5p ; hsa-mir-214-3p ; hsa-mir-2114-5p ; hsa-mir-7160-3p ; hsa-mir-6510-5p
Nearest miRNA
hsa-mir-3976/Upstream/1651649; hsa-mir-1-2/Downstream/153357;
Nearest TSS
ENST00000575820/Upstream/28487; ENST00000586222/Downstream/59653;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/43318, chr18-CpG: 32/Downstream/80796
Upstream sequence
ctatttgccctcaaataagacatctcatatcagcctctagatcagggtctcaaaaggacctttaaggctcattacacacggcgttctatggaaaggataa
Downstream sequence
taacgctgtgaaggagaaccctgatagagagaaggtcaggaaaatctgaaaggatttcaccattgaaggtgccactgttgtaacagaaaaaactgtgaga
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate