Variant report

Variant	rs12280601
Chromosome Location	chr11:48194485-48194486
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:48194206..48195039-chr11:49190936..49191807,2	MCF-7	breast:
2	chr11:48194137..48195015-chr11:48231499..48232341,4	MCF-7	breast:
3	chr11:48193798..48195313-chr11:48231364..48232253,10	MCF-7	breast:

Extended variants
information (count: 95 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1018137	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs1039482	1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs10501322	0.88[CEU][hapmap]
rs10734565	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs10742837	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs10742840	1.00[YRI][hapmap]
rs11039509	0.88[CEU][hapmap]
rs11819788	0.90[CEU][hapmap]
rs1393797	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs1503184	0.94[AFR][1000 genomes]
rs1566735	0.87[CEU][hapmap]
rs17727563	0.88[CEU][hapmap]
rs17727629	0.90[CEU][hapmap]
rs17727725	0.89[CEU][hapmap]
rs17728223	1.00[CEU][hapmap]
rs17789481	0.88[CEU][hapmap]
rs17789547	0.90[CEU][hapmap]
rs17789571	0.88[CEU][hapmap]
rs17789583	0.88[CEU][hapmap]
rs17800782	1.00[CEU][hapmap]
rs17800980	1.00[CEU][hapmap]
rs2174127	0.87[AFR][1000 genomes]
rs4620681	0.94[AFR][1000 genomes]
rs4752905	1.00[YRI][hapmap]
rs4752908	1.00[YRI][hapmap]
rs4752909	1.00[YRI][hapmap]
rs4752910	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs4752912	0.94[AFR][1000 genomes]
rs55917880	0.88[EUR][1000 genomes]
rs56318860	0.88[EUR][1000 genomes]
rs61915921	0.88[EUR][1000 genomes]
rs61915922	0.83[EUR][1000 genomes]
rs61915955	1.00[EUR][1000 genomes]
rs61915956	1.00[EUR][1000 genomes]
rs61915958	1.00[EUR][1000 genomes]
rs61916961	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs61916962	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs61916966	0.94[EUR][1000 genomes]
rs61916990	0.94[EUR][1000 genomes]
rs6485810	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs6485811	0.94[YRI][hapmap]
rs6485816	1.00[YRI][hapmap]
rs7105212	1.00[CEU][hapmap]
rs7105504	0.94[AFR][1000 genomes]
rs7106202	0.88[CEU][hapmap]
rs7111553	0.89[CEU][hapmap]
rs7115597	0.85[AFR][1000 genomes]
rs7116633	0.89[EUR][1000 genomes]
rs7122208	0.94[AFR][1000 genomes]
rs7122429	0.94[AFR][1000 genomes]
rs7123505	0.87[AFR][1000 genomes]
rs7124109	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs7126371	0.88[EUR][1000 genomes]
rs7939043	0.94[EUR][1000 genomes]
rs7939201	0.94[EUR][1000 genomes]
rs7948398	0.94[AFR][1000 genomes]
rs7951730	0.94[AFR][1000 genomes]
rs7952452	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs905482	1.00[YRI][hapmap];0.81[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:36 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1052397	chr11:47675470-48594256	Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
2	nsv530620	chr11:47765455-48664555	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	93 gene(s)	inside rSNPs	diseases
3	nsv1036992	chr11:47794621-48666024	Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
4	nsv1036451	chr11:47902321-48616646	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
5	nsv541037	chr11:47902321-48616646	Enhancers Strong transcription Genic enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
6	nsv1047490	chr11:47916708-48388686	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
7	nsv1044266	chr11:47929586-48276132	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
8	nsv541038	chr11:47929586-48276132	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
9	esv3396029	chr11:47993857-48241494	Weak transcription Strong transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
10	nsv897327	chr11:48004369-48911660	ZNF genes & repeats Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
11	nsv869124	chr11:48014539-48783113	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
12	nsv1051805	chr11:48016488-48378048	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
13	nsv897328	chr11:48043053-48901553	Strong transcription Enhancers Genic enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
14	nsv897329	chr11:48052676-48319974	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
15	nsv1048554	chr11:48062861-48388686	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
16	nsv1038210	chr11:48068862-48388686	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
17	nsv1052076	chr11:48077864-48702549	ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Enhancers Weak transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
18	nsv869354	chr11:48088580-48783113	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
19	nsv1045734	chr11:48089315-48893207	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
20	nsv467871	chr11:48106486-48694871	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
21	nsv554211	chr11:48106486-48694871	Weak transcription Genic enhancers Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
22	nsv948502	chr11:48110043-48891877	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
23	nsv1050815	chr11:48126145-48342923	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	10 gene(s)	inside rSNPs	diseases
24	nsv1043509	chr11:48127618-48616507	ZNF genes & repeats Enhancers Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
25	nsv541039	chr11:48127618-48616507	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
26	nsv1049379	chr11:48129034-48374636	Enhancers Strong transcription Weak transcription 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 miRNA target site	10 gene(s)	inside rSNPs	diseases
27	nsv428253	chr11:48133996-48524981	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
28	nsv1051661	chr11:48149295-48616507	Weak transcription Enhancers ZNF genes & repeats Strong transcription 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 miRNA target site	20 gene(s)	inside rSNPs	diseases
29	nsv541040	chr11:48149295-48616507	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
30	nsv1047295	chr11:48159630-48388686	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	9 gene(s)	inside rSNPs	diseases
31	nsv897330	chr11:48168664-48850587	ZNF genes & repeats Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
32	esv3448080	chr11:48187996-48289788	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
33	nsv1041394	chr11:48188748-48346202	Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
34	nsv1053366	chr11:48189421-48355981	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
35	nsv541041	chr11:48189421-48355981	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
36	nsv1036698	chr11:48191905-48342923	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:48176000-48194600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr11:48186000-48194800	Weak transcription	Fetal Brain Male	brain
3	chr11:48186800-48194800	Weak transcription	Duodenum Mucosa	Duodenum
4	chr11:48187200-48194600	Weak transcription	Stomach Smooth Muscle	stomach
5	chr11:48187600-48194800	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr11:48189200-48194600	Weak transcription	Pancreas	Pancrea
7	chr11:48189400-48194600	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr11:48191400-48194600	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr11:48191600-48194600	Weak transcription	Psoas Muscle	Psoas
10	chr11:48191600-48194800	Weak transcription	Adipose Nuclei	Adipose
11	chr11:48191800-48194600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr11:48191800-48194600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr11:48191800-48194600	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr11:48191800-48194800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr11:48191800-48195000	Weak transcription	Fetal Intestine Small	intestine
16	chr11:48191800-48196400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr11:48192000-48199600	Weak transcription	Right Atrium	heart
18	chr11:48192200-48194600	Weak transcription	Brain Angular Gyrus	brain
19	chr11:48192200-48194600	Weak transcription	HSMM	muscle
20	chr11:48192200-48194800	Enhancers	Primary T helper cells PMA-I stimulated	--
21	chr11:48192200-48195000	Weak transcription	A549	lung
22	chr11:48192600-48194600	Weak transcription	HSMMtube	muscle
23	chr11:48192600-48195600	Enhancers	Fetal Heart	heart
24	chr11:48192800-48194600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr11:48192800-48194600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
26	chr11:48192800-48194600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr11:48192800-48194600	Weak transcription	Brain Anterior Caudate	brain
28	chr11:48192800-48194600	Weak transcription	Brain Cingulate Gyrus	brain
29	chr11:48192800-48194600	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr11:48192800-48194600	Weak transcription	Brain Substantia Nigra	brain
31	chr11:48192800-48194600	Weak transcription	Fetal Muscle Trunk	muscle
32	chr11:48193000-48194600	Weak transcription	Muscle Satellite Cultured Cells	--
33	chr11:48193400-48194600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr11:48193400-48194600	Weak transcription	Brain Hippocampus Middle	brain
35	chr11:48193400-48194600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr11:48193400-48194600	Weak transcription	Fetal Lung	lung
37	chr11:48193400-48194800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
38	chr11:48193400-48194800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr11:48193400-48194800	Weak transcription	Fetal Muscle Leg	muscle
40	chr11:48193600-48194600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr11:48193600-48194600	Weak transcription	NHLF	lung
42	chr11:48193600-48194800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr11:48193600-48194800	Weak transcription	Fetal Stomach	stomach
44	chr11:48193600-48194800	Weak transcription	Left Ventricle	heart
45	chr11:48193800-48194600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr11:48193800-48194600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr11:48193800-48194600	Weak transcription	NHDF-Ad	bronchial
48	chr11:48193800-48194600	Weak transcription	Osteobl	bone
49	chr11:48194200-48195000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
50	chr11:48194200-48195200	Enhancers	Primary T cells fromperipheralblood	blood

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