Basic Information
VIS ID
TVIS30002993
Fusion event
HIV-SMIM7 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
chr19
Cytoband
p13.11
Reference genome
GRCh37/hg19
Start
16754713/16643902 (Hg38)
End
16754713/16643902 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
SMIM7
miRNAs that regulate target gene
hsa-mir-6894-5p ; hsa-mir-765 ; hsa-mir-7154-3p ; hsa-mir-766-5p ; hsa-mir-139-3p ; hsa-mir-873-5p ; hsa-mir-4802-5p ; hsa-mir-4790-3p ; hsa-mir-150-5p ; hsa-mir-186-3p ; hsa-mir-153-5p ; hsa-mir-1250-3p ; hsa-mir-129-5p ; hsa-mir-216a-5p ; hsa-mir-3672 ; hsa-mir-4289 ; hsa-mir-4524a-3p ; hsa-mir-6758-3p ; hsa-mir-6818-3p ; hsa-mir-6864-3p ; hsa-mir-8055
Nearest miRNA
hsa-mir-10395/Upstream/1194294; hsa-let-7e/Downstream/1638175;
Nearest TSS
ENST00000633603/Upstream/12415; ENST00000595452/Downstream/15912;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/15034, chr19-CpG: 156/Downstream/15923
Nearby gene
SMIM7(No orient, 2246)
Upstream sequence
CTAATGCCACAATAGAAGCCAATGAAGATCACAACACTGGTGCCAGGGGCAGCCCTGATCACAGTGGACAAAATATAATCCAAGTCCAGCAACAAGGTGG
Downstream sequence
CTAAGGACCTATTTACTGACACTGCACCGTAAGTAAAAATGAGAACTGTAACACCTCCTAGCAACAAAGCAAGTGTAAAGAAAATGATGCTGAAATGAAC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate