Basic Information
VIS ID
TVIS30011993
Fusion event
HIV-CLPX 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
65448397/65156059 (Hg38)
End
65448397/65156059 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA15A
Target gene
CLPX
miRNAs that regulate target gene
hsa-let-7b-5p ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-617 ; hsa-mir-4646-5p ; hsa-mir-204-3p ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-939-3p ; hsa-mir-4511 ; hsa-mir-4325 ; hsa-mir-4793-3p ; hsa-mir-1273g-3p ; hsa-mir-4538 ; hsa-mir-4453 ; hsa-mir-5089-5p ; hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-6778-3p ; hsa-mir-6804-3p ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-1976 ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-4740-3p ; hsa-mir-6715b-5p ; hsa-mir-4269 ; hsa-mir-6504-3p ; hsa-mir-4438
Nearest miRNA
hsa-mir-10393/Upstream/393544; hsa-mir-11181/Downstream/563187;
Nearest TSS
ENST00000557528/Upstream/208; ENST00000566239/Downstream/6588;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/22164, chr15-CpG: 99/Downstream/28397
Upstream sequence
AATGCACATACCTAATGAAACTCCCACATTCCTATAACTAACAAGAAAATCTAATGCATTTATCACATTAATAATTAATACATTTATTTGAAATGGTTAC
Downstream sequence
AGAACTTGATGCATTGTAATTCAGGAAAACAGTCAACCTGAGAGGTTGTTTTTGATAGTAAAGACATAATTCTGACATAAACACAGAATTATGACTGTAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate