Variant report

Variant	rs2668567
Chromosome Location	chr4:54521632-54521633
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr4:54521620-54521770	AoAF	blood vessel:	n/a	n/a
2	WRNIP1	chr4:54521418-54521666	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
LNX1	TF binding region
ENSG00000249341	TF binding region

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1022187	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11945428	0.84[CEU][hapmap]
rs1546527	0.87[ASN][1000 genomes]
rs2412470	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2572292	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2572300	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2590770	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2590771	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2590773	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2590778	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2590779	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2590809	0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2590810	0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2616383	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2616387	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2616388	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2616389	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2616425	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2668522	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2668523	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2668525	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2668526	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2668527	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2668528	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2668550	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2668551	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2668552	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3113662	0.95[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs750545	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][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	nsv829936	chr4:54367783-54556123	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:54515600-54522400	Enhancers	Stomach Mucosa	stomach
2	chr4:54517600-54523200	Weak transcription	Spleen	Spleen
3	chr4:54518000-54523200	Weak transcription	HSMM	muscle
4	chr4:54518800-54521800	Weak transcription	Small Intestine	intestine
5	chr4:54519400-54522000	Enhancers	Colon Smooth Muscle	Colon
6	chr4:54519400-54523600	Enhancers	Fetal Muscle Leg	muscle
7	chr4:54519600-54522200	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr4:54519600-54522200	Enhancers	Right Atrium	heart
9	chr4:54519600-54522400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr4:54519600-54522400	Enhancers	NHDF-Ad	bronchial
11	chr4:54519600-54522800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr4:54519600-54522800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr4:54519600-54523400	Enhancers	NHLF	lung
14	chr4:54519800-54522400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr4:54520200-54522000	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr4:54520200-54524400	Weak transcription	Ovary	ovary
17	chr4:54520400-54521800	Enhancers	NHEK	skin
18	chr4:54520800-54522000	Enhancers	Stomach Smooth Muscle	stomach
19	chr4:54520800-54524000	Weak transcription	Fetal Heart	heart
20	chr4:54521000-54522000	Weak transcription	Duodenum Mucosa	Duodenum
21	chr4:54521000-54522200	Enhancers	Skeletal Muscle Male	skeletal muscle
22	chr4:54521000-54524200	Weak transcription	Fetal Stomach	stomach
23	chr4:54521200-54522200	Enhancers	Breast Myoepithelial Primary Cells	Breast
24	chr4:54521200-54522200	Enhancers	Gastric	stomach
25	chr4:54521200-54522400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr4:54521200-54522400	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr4:54521400-54522200	Enhancers	Aorta	Aorta
28	chr4:54521400-54522200	Enhancers	Esophagus	oesophagus
29	chr4:54521400-54522200	Enhancers	Left Ventricle	heart
30	chr4:54521600-54522800	Weak transcription	Osteobl	bone
31	chr4:54521600-54523400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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