Variant report

Variant	rs11023754
Chromosome Location	chr11:15893311-15893312
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:15891804..15893918-chr11:15903502..15905897,2	K562	blood:
2	chr11:15893121..15894660-chr11:15906120..15908174,2	K562	blood:
3	chr11:15891343..15894307-chr11:16628569..16630598,2	K562	blood:

Variant related genes	Relation type
ENSG00000110693	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10766289	0.91[AMR][1000 genomes]
rs10832526	0.91[AMR][1000 genomes]
rs10832527	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10832528	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11023749	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11023751	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11023753	0.83[CEU][hapmap]
rs11023756	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11023759	0.87[ASN][1000 genomes]
rs11023765	0.83[ASN][1000 genomes]
rs11604993	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1371909	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1440702	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1440703	0.83[ASN][1000 genomes]
rs1440708	0.80[GIH][hapmap];0.83[MEX][hapmap]
rs1440709	0.92[MEX][hapmap]
rs1440718	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1440719	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1440720	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1866819	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1866821	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1920667	0.80[GIH][hapmap];0.92[MEX][hapmap]
rs2008923	0.81[EUR][1000 genomes]
rs2011772	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2083526	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2119375	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2196961	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2582309	0.81[EUR][1000 genomes]
rs2615023	0.81[EUR][1000 genomes]
rs2615024	0.81[EUR][1000 genomes]
rs4756839	0.91[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4757377	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56183020	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7122245	0.88[EUR][1000 genomes]
rs732908	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs874189	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs882148	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs965476	0.81[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832073	chr11:15822409-15984078	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11023754	DKK3	cis	cerebellum	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:15890400-15897000	Weak transcription	Fetal Intestine Small	intestine
2	chr11:15891800-15894600	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr11:15892000-15894000	Enhancers	Brain Germinal Matrix	brain
4	chr11:15892000-15894800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr11:15892200-15893800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr11:15892200-15893800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr11:15892400-15894200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr11:15892400-15894400	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr11:15892600-15893800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr11:15892600-15894000	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr11:15892600-15894400	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr11:15892600-15894600	Enhancers	H1 Cell Line	embryonic stem cell
13	chr11:15892800-15894000	Enhancers	H9 Cell Line	embryonic stem cell
14	chr11:15892800-15894400	Enhancers	ES-I3 Cell Line	embryonic stem cell
15	chr11:15893000-15894200	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr11:15893000-15896000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr11:15893200-15894000	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr11:15893200-15895800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

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