Variant report

Variant	rs10897524
Chromosome Location	chr11:64503363-64503364
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	EBF1	chr11:64503084-64503367	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:64503034..64505808-chr11:64508705..64511765,4	MCF-7	breast:
2	chr11:64502299..64505841-chr11:64506050..64510563,6	K562	blood:

Variant related genes	Relation type
RASGRP2	TF binding region
ENSG00000068831	Chromatin interaction

Extended variants
information (count: 80 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10400348	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10792444	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11231853	0.87[EUR][1000 genomes]
rs11231859	0.92[GIH][hapmap];0.85[JPT][hapmap];0.93[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1207113	0.86[ASN][1000 genomes]
rs1207181	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12223914	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12417551	0.88[EUR][1000 genomes]
rs12575704	0.87[EUR][1000 genomes]
rs1633462	0.97[EUR][1000 genomes]
rs17146121	0.81[GIH][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2003293	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2073797	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2073798	0.86[CHB][hapmap];0.88[GIH][hapmap];0.81[JPT][hapmap];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2230414	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2267918	0.92[GIH][hapmap];0.85[JPT][hapmap];0.87[TSI][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2284301	0.90[ASW][hapmap];0.91[CHB][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2375335	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2959652	0.86[CHB][hapmap];0.88[GIH][hapmap];0.81[JPT][hapmap];0.94[TSI][hapmap];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3741398	1.00[TSI][hapmap];0.90[EUR][1000 genomes]
rs3809076	0.92[GIH][hapmap];0.93[TSI][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs474707	0.94[TSI][hapmap];0.95[EUR][1000 genomes]
rs476037	0.81[GIH][hapmap];0.86[TSI][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs477549	0.88[TSI][hapmap];0.97[EUR][1000 genomes]
rs483962	0.94[TSI][hapmap];0.98[EUR][1000 genomes]
rs487105	1.00[TSI][hapmap];0.97[EUR][1000 genomes]
rs489192	0.93[TSI][hapmap];0.88[EUR][1000 genomes]
rs490980	0.90[EUR][1000 genomes]
rs494128	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs496914	0.92[GIH][hapmap];0.85[JPT][hapmap];0.87[TSI][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs523200	0.88[TSI][hapmap];0.95[EUR][1000 genomes]
rs523752	0.83[EUR][1000 genomes]
rs532747	1.00[GIH][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs547066	0.92[GIH][hapmap];0.86[TSI][hapmap];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs555974	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs569602	0.86[CHB][hapmap];1.00[GIH][hapmap];0.81[JPT][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs580374	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58483071	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs589691	0.90[CHB][hapmap];0.88[GIH][hapmap];0.81[JPT][hapmap];0.88[TSI][hapmap];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs593394	0.97[EUR][1000 genomes]
rs606458	0.88[TSI][hapmap];0.89[EUR][1000 genomes]
rs607389	0.86[EUR][1000 genomes]
rs620006	0.95[EUR][1000 genomes]
rs625172	0.86[CHB][hapmap];0.88[GIH][hapmap];0.81[JPT][hapmap];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs630966	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs633923	0.95[EUR][1000 genomes]
rs637332	0.94[TSI][hapmap];0.98[EUR][1000 genomes]
rs667237	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs674297	0.95[EUR][1000 genomes]
rs677298	0.84[GIH][hapmap]
rs680273	0.85[GIH][hapmap];0.88[TSI][hapmap];0.92[EUR][1000 genomes]
rs683841	0.87[EUR][1000 genomes]
rs684720	0.87[EUR][1000 genomes]
rs686171	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs693235	0.92[GIH][hapmap];0.85[JPT][hapmap];0.87[TSI][hapmap];0.85[AMR][1000 genomes]
rs72643567	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72643568	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7938455	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7939965	0.81[GIH][hapmap];0.93[TSI][hapmap];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:21 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv468596	chr11:64334114-64527080	Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv555195	chr11:64334114-64527080	Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv897694	chr11:64334114-64584959	Weak transcription Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
4	nsv818842	chr11:64345448-64546391	Bivalent Enhancer Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
5	nsv528506	chr11:64345448-64701030	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1075 gene(s)	inside rSNPs	diseases
6	nsv555196	chr11:64357072-64559898	Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
7	nsv897695	chr11:64357072-64701030	Weak transcription Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1075 gene(s)	inside rSNPs	diseases
8	nsv1051350	chr11:64372906-64533632	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
9	nsv555198	chr11:64373899-64573589	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
10	esv1804443	chr11:64386453-64534785	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
11	nsv897697	chr11:64447420-64584959	Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
12	nsv897698	chr11:64447420-64621573	Active TSS Bivalent Enhancer Genic enhancers Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
13	nsv897699	chr11:64447420-64638041	Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
14	nsv897700	chr11:64447420-64701030	Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1071 gene(s)	inside rSNPs	diseases
15	nsv555202	chr11:64477050-64573589	Strong transcription Bivalent/Poised TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
16	nsv468597	chr11:64477050-64584959	Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
17	nsv468598	chr11:64477050-64584959	Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
18	nsv555203	chr11:64477050-64584959	Strong transcription Genic enhancers Bivalent Enhancer Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
19	nsv1049744	chr11:64486615-64630149	Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
20	nsv832189	chr11:64487183-64620199	Weak transcription Transcr. at gene 5' and 3' Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
21	nsv897701	chr11:64501991-64520569	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10897524	SF1	cis	multi-tissue	Pritchard
rs10897524	SF1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:64491400-64509400	Weak transcription	Right Atrium	heart
2	chr11:64491400-64509600	Weak transcription	Brain Angular Gyrus	brain
3	chr11:64491400-64509600	Weak transcription	Pancreas	Pancrea
4	chr11:64491600-64509200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr11:64491600-64509400	Weak transcription	Brain Hippocampus Middle	brain
6	chr11:64491800-64509400	Weak transcription	Brain Substantia Nigra	brain
7	chr11:64491800-64509800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr11:64492000-64509600	Weak transcription	Brain Cingulate Gyrus	brain
9	chr11:64493400-64508800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr11:64493600-64503800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr11:64493600-64507800	Strong transcription	Primary neutrophils fromperipheralblood	blood
12	chr11:64493600-64508000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr11:64493800-64503600	Strong transcription	Primary B cells from peripheral blood	blood
14	chr11:64494000-64508400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
15	chr11:64494000-64508600	Strong transcription	Primary monocytes fromperipheralblood	blood
16	chr11:64494000-64508600	Strong transcription	Primary T cells from cord blood	blood
17	chr11:64494000-64508600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr11:64494200-64503400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr11:64495800-64505200	Strong transcription	Fetal Thymus	thymus
20	chr11:64497800-64504000	Weak transcription	Placenta	Placenta
21	chr11:64498000-64503800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr11:64498000-64503800	Strong transcription	Spleen	Spleen
23	chr11:64498000-64508400	Strong transcription	Monocytes-CD14+_RO01746	blood
24	chr11:64498200-64509000	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr11:64498400-64506800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr11:64498400-64506800	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr11:64499400-64506800	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr11:64499800-64503400	Weak transcription	Fetal Brain Male	brain
29	chr11:64499800-64504600	Weak transcription	Fetal Brain Female	brain
30	chr11:64499800-64506800	Weak transcription	H1 Cell Line	embryonic stem cell
31	chr11:64499800-64509200	Weak transcription	Brain Anterior Caudate	brain
32	chr11:64500600-64508600	Strong transcription	Stomach Smooth Muscle	stomach
33	chr11:64501000-64503400	Strong transcription	Primary T helper naive cells from peripheral blood	blood
34	chr11:64501000-64505000	Strong transcription	Primary T killer memory cells from peripheral blood	blood
35	chr11:64501200-64503400	Strong transcription	Primary T helper cells fromperipheralblood	blood
36	chr11:64501400-64504400	Genic enhancers	Primary T helper cells PMA-I stimulated	--
37	chr11:64502000-64503400	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr11:64502000-64504400	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr11:64502200-64503800	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
40	chr11:64502200-64503800	Enhancers	Liver	Liver
41	chr11:64502200-64504400	Strong transcription	Lung	lung
42	chr11:64502200-64504600	Genic enhancers	Primary mononuclear cells fromperipheralblood	Blood
43	chr11:64502200-64504600	Strong transcription	Fetal Stomach	stomach
44	chr11:64502200-64505000	Strong transcription	Rectal Smooth Muscle	rectum
45	chr11:64502200-64505400	Strong transcription	Primary B cells from cord blood	blood
46	chr11:64502200-64505800	Strong transcription	Primary hematopoietic stem cells	blood
47	chr11:64502400-64504600	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
48	chr11:64502400-64504800	Strong transcription	Aorta	Aorta
49	chr11:64502400-64504800	Strong transcription	Dnd41	blood
50	chr11:64502400-64505000	Strong transcription	iPS-15b Cell Line	embryonic stem cell

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