Basic Information
VIS ID
TVIS30016097
Fusion event
HIV-SMC1B integration
Validated
Yes
Detection method
LM PCR
Data source
Curated
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Good
Reported year
2014
PubMed ID
24968937
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr22
Cytoband
q13.31
Reference genome
GRCh37/hg19
Start
45748216/45352335 (Hg38)
End
45748409/45352335 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA22A
Target gene
SMC1B
Nearest miRNA
hsa-mir-1249/Upstream/151316; hsa-let-7a-3/Downstream/408189;
Nearest TSS
ENST00000624155/Upstream/15940; ENST00000621287/Downstream/61232;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/41600, chr22-CpG: 92/Downstream/60682
Upstream sequence
CCCCACTAAAAATCTAAGAATTCTGTCTTCGATTTGCTGTGTAAAGTCTAAATTGTTGTAGGCCTAAAACATAATCTGAATTGTCTGGCTGAAGAAGATA
Downstream sequence
TGCCTGGGGCCACACAGTTATAGCTAATTCCCTCCAAGTAAGGTTCTTCAGGGTTCTCTGGGCTAAGAAATGCCTGAAACGCATGTTATTTATTTAGCAA
Target sequence
GTTTTGTATCTCATTTGCTAAATATTAATAAAGACAATAGTTAATATATCTTCTGTAGGAAGGTCCCCTGGCTTCTGCCCTGATATGAAAACTGAATAGCTTTTGTGACCTTACCTGTGCACAGCAAACAGGAGAGCCAAGGCTGCCACACACTTTTCTCCCCCTGACAAATTGTCCATTGGCATAAACCGTT
Reference
Maldarelli, F., et al. Specific HIV integration sites are linked to clonal expansion and persistence of infected cells. Science,2014, 345(6193): 179-183.
Curate