Basic Information
VIS ID
TVIS30012667
Fusion event
HIV-HPCAL1 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
chr2
Cytoband
p25.1
Reference genome
GRCh37/hg19
Start
10484164/10344038 (Hg38)
End
10484164/10344038 (Hg38)
Orient
+
Location type
Intronic
Target gene
HPCAL1
miRNAs that regulate target gene
hsa-mir-7-5p ; hsa-mir-3976 ; hsa-mir-8085 ; hsa-mir-6731-5p ; hsa-mir-4745-3p ; hsa-mir-1538 ; hsa-mir-873-5p ; hsa-mir-6746-5p ; hsa-mir-6784-5p ; hsa-mir-4532 ; hsa-mir-1247-3p ; hsa-mir-4747-3p ; hsa-mir-6165 ; hsa-mir-2278 ; hsa-mir-1249-5p ; hsa-mir-125a-3p ; hsa-mir-1321 ; hsa-mir-3197 ; hsa-mir-3934-5p ; hsa-mir-4419a ; hsa-mir-4510 ; hsa-mir-4739 ; hsa-mir-4756-5p ; hsa-mir-4779 ; hsa-mir-5587-5p ; hsa-mir-6127 ; hsa-mir-6129 ; hsa-mir-6130 ; hsa-mir-6133 ; hsa-mir-6797-5p ; hsa-mir-6801-5p ; hsa-mir-6880-5p ; hsa-mir-6894-5p ; hsa-mir-7154-3p ; hsa-mir-764 ; hsa-mir-765 ; hsa-mir-766-5p ; hsa-mir-7847-3p
Nearest miRNA
hsa-mir-4261/Upstream/151367; hsa-mir-10b/Downstream/1196567;
Nearest TSS
ENST00000437798/Upstream/13875; ENST00000422133/Downstream/24640;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/39655, chr2-CpG: 54/Downstream/75552
Upstream sequence
CTGCACCTCTTGGGATATAGAGAACGCTGGCTTCAGACCCGGCAGGAGTACCGGCGGCTGTGTGGTGCATCCTGCACAGAGCTGTTGCTTTCTAACTGGG
Downstream sequence
TTACTGAGCTGTCGAAGGAGCAGGGATGAAGACTCCCTTATTAAAAACTAAACAAAACACAACACGAAAAAGCCAGAACAAAACAAGCAGACGGTTGAGG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate