Variant report

Variant	rs17340802
Chromosome Location	chr4:141919883-141919884
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1003257	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11932554	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12019258	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13129199	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1364881	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1425445	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17343501	0.87[CEU][hapmap]
rs17425151	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1895762	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1899424	1.00[CHB][hapmap];0.85[CHD][hapmap];0.85[ASN][1000 genomes]
rs3851424	0.93[CEU][hapmap];0.83[GIH][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3851425	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4245936	1.00[CHB][hapmap];0.85[CHD][hapmap];0.85[ASN][1000 genomes]
rs4956518	1.00[CHB][hapmap]
rs56288735	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59074378	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60293572	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62325721	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62325722	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62325723	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62326020	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62326022	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62326024	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6537024	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];0.97[TSI][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6823670	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73849462	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73849490	0.85[ASN][1000 genomes]
rs7665647	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7690780	0.87[CEU][hapmap]
rs7692524	0.87[CEU][hapmap]
rs9994743	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880167	chr4:141616979-142092124	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv830090	chr4:141770494-141947764	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv830091	chr4:141796603-141980546	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:141911000-141923600	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr4:141914200-141920200	Weak transcription	Lung	lung
3	chr4:141917200-141923400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr4:141917800-141923400	Weak transcription	Adipose Nuclei	Adipose
5	chr4:141918200-141923400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr4:141918200-141923400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr4:141918200-141923400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr4:141918400-141923200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr4:141918400-141923400	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr4:141918600-141923200	Weak transcription	Osteobl	bone
11	chr4:141919000-141920400	Enhancers	Colon Smooth Muscle	Colon
12	chr4:141919200-141920200	Strong transcription	Fetal Muscle Trunk	muscle
13	chr4:141919400-141920000	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr4:141919400-141920000	Genic enhancers	Fetal Muscle Leg	muscle
15	chr4:141919400-141920000	Enhancers	Right Atrium	heart
16	chr4:141919400-141920200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
17	chr4:141919400-141920200	Enhancers	Skeletal Muscle Male	skeletal muscle
18	chr4:141919400-141920400	Enhancers	Right Ventricle	heart
19	chr4:141919400-141920600	Enhancers	Rectal Smooth Muscle	rectum
20	chr4:141919600-141920000	Enhancers	Left Ventricle	heart
21	chr4:141919600-141920000	Enhancers	Psoas Muscle	Psoas
22	chr4:141919600-141920600	Enhancers	Aorta	Aorta
23	chr4:141919600-141920600	Enhancers	Skeletal Muscle Female	skeletal muscle
24	chr4:141919600-141920800	Enhancers	Stomach Smooth Muscle	stomach
25	chr4:141919600-141923600	Enhancers	Fetal Heart	heart
26	chr4:141919800-141920000	Genic enhancers	Fetal Stomach	stomach
27	chr4:141919800-141920200	Enhancers	Ovary	ovary

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