Variant report

Variant	rs1440709
Chromosome Location	chr11:15848835-15848836
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:15848101..15848993-chr11:16634904..16635824,3	K562	blood:
2	chr11:15847163..15849862-chr11:15922675..15924255,2	MCF-7	breast:
3	chr11:15845677..15847198-chr11:15848084..15850314,2	K562	blood:
4	chr11:15671103..15671780-chr11:15848509..15849081,2	MCF-7	breast:
5	chr11:15846564..15849425-chr11:16633366..16635288,2	K562	blood:

Variant related genes	Relation type
ENSG00000110696	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1009460	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10832522	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10832523	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11023740	0.81[AMR][1000 genomes]
rs11023754	0.92[MEX][hapmap]
rs12226568	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12272146	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12786929	0.83[ASN][1000 genomes]
rs12800617	0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1348076	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1440708	0.83[CEU][hapmap];0.88[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.89[TSI][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1465893	0.83[ASN][1000 genomes]
rs1543832	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1837605	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1882129	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1882130	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1882132	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1920666	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1920667	0.83[ASW][hapmap];0.83[CEU][hapmap];0.88[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.86[MKK][hapmap];0.86[TSI][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1920668	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1920669	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1920670	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1920671	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1920672	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1960710	0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2165355	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2593588	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2593589	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2593590	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2615041	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2615042	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2615043	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4459259	0.81[AMR][1000 genomes]
rs61878488	0.80[AMR][1000 genomes]
rs7101476	0.83[ASN][1000 genomes]
rs7106776	0.83[ASN][1000 genomes]
rs727324	0.81[AMR][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
rs1440709	DKK3	cis	cerebellum	SCAN

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:15839400-15850200	Weak transcription	Aorta	Aorta
2	chr11:15841800-15849200	Weak transcription	Adipose Nuclei	Adipose
3	chr11:15841800-15849600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr11:15846600-15849000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr11:15847200-15850600	Enhancers	Brain Germinal Matrix	brain
6	chr11:15847400-15852200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr11:15847400-15853800	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr11:15848000-15850600	Enhancers	Skeletal Muscle Female	skeletal muscle
9	chr11:15848000-15852800	Enhancers	Brain Hippocampus Middle	brain
10	chr11:15848000-15853400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr11:15848200-15849200	Weak transcription	Fetal Muscle Leg	muscle
12	chr11:15848200-15850000	Weak transcription	Pancreas	Pancrea
13	chr11:15848200-15850600	Enhancers	Brain Substantia Nigra	brain
14	chr11:15848400-15849200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr11:15848400-15849800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr11:15848400-15852400	Weak transcription	NH-A	brain
17	chr11:15848400-15853000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr11:15848600-15849800	Weak transcription	Stomach Smooth Muscle	stomach
19	chr11:15848600-15850200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr11:15848600-15850600	Enhancers	Brain Cingulate Gyrus	brain
21	chr11:15848600-15852600	Enhancers	Fetal Lung	lung
22	chr11:15848800-15849200	Weak transcription	Right Atrium	heart
23	chr11:15848800-15850000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr11:15848800-15850000	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr11:15848800-15851600	Weak transcription	Lung	lung
26	chr11:15848800-15852000	Weak transcription	Left Ventricle	heart
27	chr11:15848800-15857600	Weak transcription	Fetal Muscle Trunk	muscle

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