Variant report

Variant	rs1657938
Chromosome Location	chr15:57109533-57109534
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:57107595..57111663-chr15:57111716..57115001,4	K562	blood:
2	chr15:57106197..57110196-chr15:57111997..57118015,6	K562	blood:
3	chr15:57102473..57104641-chr15:57108016..57110704,2	K562	blood:

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10450961	0.81[EUR][1000 genomes]
rs10518878	0.90[ASN][1000 genomes]
rs10851612	0.88[CEU][hapmap];0.86[TSI][hapmap];0.83[EUR][1000 genomes]
rs1115019	1.00[CEU][hapmap];0.96[MEX][hapmap];0.94[TSI][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13379960	0.83[EUR][1000 genomes]
rs1430819	0.83[EUR][1000 genomes]
rs1441235	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1441236	0.94[CEU][hapmap];0.86[TSI][hapmap]
rs1612205	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1629339	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1647378	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1647385	0.86[AMR][1000 genomes]
rs1647392	0.94[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.85[MKK][hapmap];0.80[TSI][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1652744	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1652746	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1652747	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1652748	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1657922	1.00[CEU][hapmap];0.96[MEX][hapmap];0.87[TSI][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1657927	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1657930	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1657934	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.97[TSI][hapmap];0.93[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1657935	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1657936	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1657937	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1657939	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1660948	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1660950	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1660951	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1660963	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1660964	0.89[AMR][1000 genomes]
rs16977079	0.83[ASN][1000 genomes]
rs2161933	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2278613	0.94[CEU][hapmap];0.83[EUR][1000 genomes]
rs28568712	0.83[EUR][1000 genomes]
rs28609621	0.83[EUR][1000 genomes]
rs28736360	0.83[EUR][1000 genomes]
rs4313751	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4774893	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4774895	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56965085	0.89[ASN][1000 genomes]
rs6493893	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.83[MKK][hapmap];0.89[TSI][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6493894	0.82[EUR][1000 genomes]
rs67114210	0.86[ASN][1000 genomes]
rs68083905	0.95[ASN][1000 genomes]
rs7163302	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7166876	0.88[ASN][1000 genomes]
rs7175191	0.88[CEU][hapmap]
rs7178196	0.82[ASN][1000 genomes]
rs7182691	0.87[ASN][1000 genomes]
rs7359253	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.94[TSI][hapmap];0.93[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8026149	0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8042606	0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3422474	chr15:56867190-57244330	Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv569576	chr15:57012816-57126917	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv833020	chr15:57055947-57216068	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	nsv457162	chr15:57083006-57225766	Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv569577	chr15:57083006-57225766	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
6	nsv1042486	chr15:57094598-57505992	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57100200-57114000	Weak transcription	Brain Cingulate Gyrus	brain
2	chr15:57100400-57111600	Weak transcription	Thymus	Thymus
3	chr15:57102600-57109800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr15:57104800-57110600	Enhancers	HUVEC	blood vessel
5	chr15:57105000-57114000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr15:57105000-57114200	Weak transcription	Ovary	ovary
7	chr15:57105400-57109800	Weak transcription	Fetal Heart	heart
8	chr15:57106600-57112400	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr15:57106600-57113400	Weak transcription	Psoas Muscle	Psoas
10	chr15:57106600-57113800	Weak transcription	Brain Substantia Nigra	brain
11	chr15:57107400-57109600	Weak transcription	Small Intestine	intestine
12	chr15:57108000-57110200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr15:57108200-57110000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr15:57108200-57110000	Enhancers	Skeletal Muscle Female	skeletal muscle
15	chr15:57108200-57110400	Enhancers	Brain Anterior Caudate	brain
16	chr15:57108200-57110800	Enhancers	Brain Germinal Matrix	brain
17	chr15:57108400-57109600	Enhancers	NH-A	brain
18	chr15:57108400-57110000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr15:57108400-57110000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr15:57108400-57110000	Enhancers	Adipose Nuclei	Adipose
21	chr15:57108400-57110000	Enhancers	Right Ventricle	heart
22	chr15:57108400-57110600	Enhancers	Osteobl	bone
23	chr15:57108800-57110400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr15:57109000-57109600	Enhancers	Hela-S3	cervix
25	chr15:57109000-57110000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr15:57109000-57110000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr15:57109000-57110000	Enhancers	Fetal Muscle Leg	muscle
28	chr15:57109000-57110000	Enhancers	Left Ventricle	heart
29	chr15:57109000-57110000	Enhancers	Right Atrium	heart
30	chr15:57109000-57110000	Enhancers	HSMMtube	muscle
31	chr15:57109000-57110000	Enhancers	NHLF	lung
32	chr15:57109000-57110200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr15:57109000-57110200	Enhancers	Stomach Smooth Muscle	stomach
34	chr15:57109000-57110400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr15:57109000-57110400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr15:57109000-57110400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr15:57109000-57110400	Enhancers	Muscle Satellite Cultured Cells	--
38	chr15:57109000-57110400	Enhancers	HMEC	breast
39	chr15:57109000-57110400	Enhancers	HSMM	muscle
40	chr15:57109000-57110600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr15:57109000-57110600	Enhancers	Fetal Brain Male	brain
42	chr15:57109000-57110600	Enhancers	Fetal Lung	lung
43	chr15:57109000-57110600	Enhancers	NHDF-Ad	bronchial
44	chr15:57109200-57109800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr15:57109200-57109800	Enhancers	Rectal Smooth Muscle	rectum
46	chr15:57109200-57109800	Enhancers	A549	lung
47	chr15:57109200-57110000	Enhancers	Aorta	Aorta
48	chr15:57109200-57110000	Enhancers	Brain Inferior Temporal Lobe	brain
49	chr15:57109200-57110000	Enhancers	Fetal Brain Female	brain
50	chr15:57109200-57110000	Enhancers	Fetal Stomach	stomach

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