Basic Information
VIS ID
TVIS30013401
Fusion event
HIV-LSM2 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
chr6
Cytoband
p21.33
Reference genome
GRCh37/hg19
Start
31769156/31801379 (Hg38)
End
31769156/31801379 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
LSM2
miRNAs that regulate target gene
hsa-mir-760 ; hsa-mir-1321 ; hsa-mir-149-3p ; hsa-mir-4271 ; hsa-mir-4419a ; hsa-mir-4510 ; hsa-mir-4646-5p ; hsa-mir-4725-3p ; hsa-mir-4728-5p ; hsa-mir-4739 ; hsa-mir-4756-5p ; hsa-mir-583 ; hsa-mir-6127 ; hsa-mir-6129 ; hsa-mir-6130 ; hsa-mir-6133 ; hsa-mir-6780b-5p ; hsa-mir-6783-5p ; hsa-mir-6785-5p ; hsa-mir-6873-5p ; hsa-mir-6883-5p
Nearest miRNA
hsa-mir-3143/Upstream/100288; hsa-mir-10398/Downstream/155460;
Nearest TSS
ENST00000381078/Upstream/5426; ENST00000375651/Downstream/5223;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/5251, chr6-CpG: 33/Downstream/5319
Upstream sequence
TGCCTAATAACAAAAACAAAAACAAACACCCAGTATCTGAAACCCACTGCCTCAGTAATGTTCTCACCATATTGCTAGCTGCTGAAAAACATTTGACAGC
Downstream sequence
ACCCCACCATCTCCAGCAGTGAAATAACATTTGGGAATTGTACAAAGTGGTGTCATTTTATTAAGTCCCTTAAGGAGGGGGAGATACATAGCACAAAAGT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate