Variant report

Variant	rs1920672
Chromosome Location	chr11:15858293-15858294
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1009460	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10766286	0.81[AMR][1000 genomes]
rs10832522	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10832523	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11023740	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11023745	0.82[AMR][1000 genomes]
rs11023754	0.92[MEX][hapmap]
rs12226568	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12272146	0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12576777	0.82[AMR][1000 genomes]
rs12786929	0.85[ASN][1000 genomes]
rs12800617	0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1348076	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1440708	0.83[CEU][hapmap];0.84[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.89[TSI][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1440709	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1465893	0.85[ASN][1000 genomes]
rs1543832	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1837605	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1882129	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1882130	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1882132	0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1920666	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1920667	0.83[CEU][hapmap];0.84[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.86[TSI][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1920668	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1920669	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1920670	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1920671	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1960710	0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2165355	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2218205	0.81[AMR][1000 genomes]
rs2351392	0.81[AMR][1000 genomes]
rs2593588	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2593589	0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2593590	0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2615041	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2615042	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2615043	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4459259	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs61878488	0.85[AMR][1000 genomes]
rs7101476	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7106776	0.85[ASN][1000 genomes]
rs727324	0.86[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
rs1920672	DKK3	cis	cerebellum	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:15850600-15860600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr11:15853000-15866600	Weak transcription	Left Ventricle	heart
3	chr11:15854200-15866600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr11:15857000-15858800	Enhancers	Colon Smooth Muscle	Colon
5	chr11:15857000-15858800	Enhancers	Skeletal Muscle Male	skeletal muscle
6	chr11:15857200-15858800	Enhancers	Psoas Muscle	Psoas
7	chr11:15857200-15859200	Enhancers	Skeletal Muscle Female	skeletal muscle
8	chr11:15857200-15860000	Enhancers	Fetal Muscle Leg	muscle
9	chr11:15857200-15860400	Enhancers	Duodenum Mucosa	Duodenum
10	chr11:15857200-15860400	Enhancers	Fetal Intestine Small	intestine
11	chr11:15857600-15859200	Enhancers	Small Intestine	intestine
12	chr11:15857600-15860000	Enhancers	Sigmoid Colon	Sigmoid Colon
13	chr11:15857800-15860600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr11:15858000-15858400	Weak transcription	Fetal Intestine Large	intestine
15	chr11:15858000-15860600	Enhancers	Rectal Mucosa Donor 31	rectum
16	chr11:15858000-15865000	Weak transcription	Fetal Muscle Trunk	muscle

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