Variant report

Variant	rs559269
Chromosome Location	chr11:107254076-107254077
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 103 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs10749889	0.85[AMR][1000 genomes]
rs10749892	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10789591	0.87[AMR][1000 genomes]
rs10789595	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10789596	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11212274	1.00[YRI][hapmap]
rs17107144	1.00[YRI][hapmap]
rs1808472	0.84[AMR][1000 genomes]
rs1834330	0.82[AMR][1000 genomes]
rs2113926	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2113927	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2355841	0.90[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2355842	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2432869	0.85[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap]
rs2508681	0.83[CEU][hapmap]
rs2883633	0.87[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs473520	0.93[CHB][hapmap];0.93[JPT][hapmap];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4754208	0.87[AMR][1000 genomes]
rs4754212	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs478067	0.85[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs478815	0.99[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs485991	0.91[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs489733	0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs489841	0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs501088	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs510743	0.99[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs512574	0.84[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs525996	0.85[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs533647	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs533703	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs537341	0.99[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs541277	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs546025	0.91[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs550882	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs551168	0.85[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs556528	0.89[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs557972	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs559223	0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs559959	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs574014	0.84[CEU][hapmap];0.80[CHB][hapmap];0.87[JPT][hapmap];0.99[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs580913	0.85[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs582790	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs583319	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs585461	0.91[CEU][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs594772	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs595336	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs595852	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs595868	0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs596843	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs602628	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs603487	0.85[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs604211	0.85[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs607151	0.85[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs610203	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs615998	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs621677	0.85[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs628513	0.99[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs637179	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs637181	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs638571	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs639437	0.85[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs650699	0.85[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs651620	0.85[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs655005	0.87[JPT][hapmap]
rs6588961	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs659622	0.81[CEU][hapmap];0.87[JPT][hapmap];0.82[AMR][1000 genomes]
rs661889	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs664485	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs669687	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs67186604	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs682042	0.85[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs682590	0.85[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs686806	0.84[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7107173	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7115296	0.87[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7127931	0.87[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7131186	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7931852	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7932042	0.90[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7932991	0.87[AMR][1000 genomes]
rs7938897	0.87[AMR][1000 genomes]
rs7945258	0.86[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7945936	0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7946787	0.87[AMR][1000 genomes]
rs90623	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv898364	chr11:106944975-107285636	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv898365	chr11:106944975-107430300	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv898366	chr11:106944975-107433835	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv898367	chr11:106944975-107443420	Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv898369	chr11:106958304-107443420	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv898370	chr11:107027991-107430300	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv898372	chr11:107049968-107433835	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	nsv1038368	chr11:107116577-107664181	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
9	nsv541163	chr11:107116577-107664181	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
10	nsv898373	chr11:107124903-107433835	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
11	nsv832261	chr11:107145901-107321562	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
12	nsv898374	chr11:107156880-107263130	Strong transcription Weak transcription ZNF genes & repeats Active TSS Enhancers Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	esv2756363	chr11:107189790-107376790	ZNF genes & repeats Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
14	nsv475	chr11:107211800-107255722	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	nsv508655	chr11:107222641-107257485	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
16	esv1812015	chr11:107239106-107257165	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
17	nsv556337	chr11:107239806-107255940	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
18	nsv556376	chr11:107250851-107486598	Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:107195000-107299200	Weak transcription	Colon Smooth Muscle	Colon
2	chr11:107219800-107256400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr11:107221800-107258400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr11:107223000-107256400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr11:107223000-107260600	Weak transcription	Brain Anterior Caudate	brain
6	chr11:107223000-107260600	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr11:107224000-107258400	Weak transcription	Primary T cells fromperipheralblood	blood
8	chr11:107225800-107256400	Weak transcription	Adipose Nuclei	Adipose
9	chr11:107230200-107261400	Weak transcription	Ovary	ovary
10	chr11:107232400-107257800	Weak transcription	Primary B cells from peripheral blood	blood
11	chr11:107240600-107261800	Weak transcription	Fetal Lung	lung
12	chr11:107241600-107261200	Weak transcription	Fetal Kidney	kidney
13	chr11:107241600-107327800	Weak transcription	HSMMtube	muscle
14	chr11:107243400-107254600	Weak transcription	NHEK	skin
15	chr11:107243800-107267600	Weak transcription	Gastric	stomach
16	chr11:107244200-107254400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr11:107245200-107256400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr11:107247200-107254600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr11:107247600-107259400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr11:107248000-107260000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr11:107248600-107255800	Weak transcription	HepG2	liver
22	chr11:107248600-107260800	Weak transcription	Brain Hippocampus Middle	brain
23	chr11:107248600-107261400	Weak transcription	Thymus	Thymus
24	chr11:107249000-107261000	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr11:107249000-107267600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr11:107249200-107260000	Weak transcription	Duodenum Mucosa	Duodenum
27	chr11:107249400-107260600	Weak transcription	Primary hematopoietic stem cells	blood
28	chr11:107249800-107256400	Weak transcription	NHDF-Ad	bronchial
29	chr11:107249800-107259600	Weak transcription	Rectal Mucosa Donor 29	rectum
30	chr11:107250200-107256600	Weak transcription	Primary T helper cells PMA-I stimulated	--
31	chr11:107250200-107260000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr11:107250200-107261800	Weak transcription	Psoas Muscle	Psoas
33	chr11:107250400-107256200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr11:107250400-107257800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr11:107250800-107256400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr11:107250800-107258400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr11:107251000-107260000	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr11:107251400-107260800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr11:107251800-107258400	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr11:107251800-107260000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
41	chr11:107251800-107260000	Weak transcription	Placenta	Placenta
42	chr11:107252000-107254600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr11:107252000-107259800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr11:107252000-107261000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr11:107252000-107261000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr11:107252200-107260400	Weak transcription	HUES48 Cell Line	embryonic stem cell
47	chr11:107252200-107260400	Weak transcription	GM12878-XiMat	blood
48	chr11:107252400-107254600	Weak transcription	Hela-S3	cervix
49	chr11:107252400-107267800	Weak transcription	Right Ventricle	heart
50	chr11:107252600-107256200	Weak transcription	Primary T killer memory cells from peripheral blood	blood

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