Variant report

Variant	rs56090029
Chromosome Location	chr11:8223063-8223064
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:8220775..8223100-chr11:8236365..8237954,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LMO1-2	chr11:8223002-8230737	NONHSAT017846

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10732513	0.87[ASN][1000 genomes]
rs10743061	0.90[ASN][1000 genomes]
rs11041793	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11041794	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11041795	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11041796	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11041798	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11041799	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11041803	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11041804	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12365701	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12786434	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12786736	0.89[ASN][1000 genomes]
rs12793315	0.89[ASN][1000 genomes]
rs17227568	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3849990	0.86[ASN][1000 genomes]
rs3849992	0.89[ASN][1000 genomes]
rs3849993	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3911309	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3911310	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4123670	0.89[ASN][1000 genomes]
rs4123671	0.89[ASN][1000 genomes]
rs4412746	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4539318	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4564325	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4636658	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4758048	0.88[ASN][1000 genomes]
rs55861670	0.83[EUR][1000 genomes]
rs55885664	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs67639141	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7114892	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7482621	0.83[ASN][1000 genomes]
rs7948836	0.87[ASN][1000 genomes]
rs9783334	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv896981	chr11:8152080-8227964	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1054339	chr11:8153582-8263173	Bivalent Enhancer Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv3343016	chr11:8221776-8224074	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	esv3405544	chr11:8222226-8223574	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:8217400-8223200	Weak transcription	Brain Hippocampus Middle	brain
2	chr11:8217600-8223800	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr11:8219000-8223200	Weak transcription	Brain Substantia Nigra	brain
4	chr11:8222600-8227400	Enhancers	Primary B cells from cord blood	blood
5	chr11:8222600-8227400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr11:8222600-8228000	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr11:8223000-8223200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr11:8223000-8223800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
9	chr11:8223000-8224600	Enhancers	Primary hematopoietic stem cells	blood
10	chr11:8223000-8224600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
11	chr11:8223000-8225200	Enhancers	Adipose Nuclei	Adipose
12	chr11:8223000-8225400	Enhancers	Fetal Lung	lung
13	chr11:8223000-8227200	Enhancers	Primary hematopoietic stem cells short term culture	blood
14	chr11:8223000-8227200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr11:8223000-8227400	Enhancers	Brain Germinal Matrix	brain
16	chr11:8223000-8228000	Enhancers	Primary B cells from peripheral blood	blood
17	chr11:8223000-8228800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood

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