Basic Information
VIS ID
TVIS30010730
Fusion event
HIV-NCAM2 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
chr21
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
22910514/21538193 (Hg38)
End
22910514/21538193 (Hg38)
Orient
-
Location type
UTR3
Target gene
NCAM2
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-26b-5p ; hsa-mir-6885-3p ; hsa-mir-1273e ; hsa-mir-3591-3p ; hsa-mir-21-3p ; hsa-mir-1277-5p ; hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-223-5p ; hsa-mir-511-3p ; hsa-mir-5011-5p ; hsa-mir-3065-5p ; hsa-mir-3529-3p ; hsa-mir-5688 ; hsa-mir-495-3p ; hsa-mir-3658 ; hsa-mir-6505-5p ; hsa-mir-3653-3p ; hsa-mir-4790-3p ; hsa-mir-6507-5p ; hsa-mir-2116-5p ; hsa-mir-22-5p ; hsa-mir-26b-3p ; hsa-mir-3622a-5p ; hsa-mir-4423-3p ; hsa-mir-4652-3p ; hsa-mir-4677-5p ; hsa-mir-4778-5p ; hsa-mir-5582-5p ; hsa-mir-627-3p ; hsa-mir-6806-5p
Nearest miRNA
hsa-let-7c/Upstream/2852029; hsa-mir-155/Downstream/1541091;
Nearest TSS
ENST00000624081/Upstream/74452; ENST00000428205/Downstream/28570;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/539948, chr21-CpG: 28/Downstream/3823601
Upstream sequence
TCAAATACTCCTGCCCATGATCCATTCCCTTttgttattgttgttgttgttgctgttgttgttAATTTTGTTAAGAATTTCAATATCAAGACTGACTGGC
Downstream sequence
ACCAACACTTTGGTATTCAATTTGATTCTATGACTGAAGTACTGGAATTTATTATGTGGCTAAAGTGCTCTATTTATTAAGAACTATATTTAATACCACC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate