Basic Information
VIS ID
TVIS30012237
Fusion event
HIV-AKAP10 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
chr17
Cytoband
p11.2
Reference genome
GRCh37/hg19
Start
19843013/19939700 (Hg38)
End
19843013/19939700 (Hg38)
Orient
+
Location type
Intronic
Target gene
AKAP10
miRNAs that regulate target gene
hsa-mir-339-5p ; hsa-mir-331-3p ; hsa-mir-155-5p ; hsa-mir-190a-3p ; hsa-mir-5580-3p ; hsa-mir-6505-5p ; hsa-mir-106a-3p ; hsa-mir-3191-5p ; hsa-mir-5571-5p ; hsa-mir-3671 ; hsa-mir-10a-3p ; hsa-mir-367-3p ; hsa-mir-25-3p ; hsa-mir-32-5p ; hsa-mir-363-3p ; hsa-mir-92b-3p ; hsa-mir-92a-3p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-527 ; hsa-mir-518a-5p ; hsa-mir-548aw ; hsa-mir-129-5p
Nearest miRNA
hsa-mir-1180/Upstream/595126; hsa-mir-10226/Downstream/7354210;
Nearest TSS
ENST00000595228/Upstream/7823; ENST00000578321/Downstream/7775;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/71199, chr17-CpG: 84/Downstream/37663
Upstream sequence
GCCTCctgtgagctccttgacaacagagactgagtttattcatctttatttccacaaaacatatcaaatgttcaataagtatctgctgaatCCATCTATC
Downstream sequence
AATATAACTCACTTGTCATATAAAATCATGGCATCATTCTGTGCCTCCTGTCCATCATATTGGCCCTTTTTGGCAGCAAGCTGAGACTGGAAGTTATCTG
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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