Variant report

Variant	rs61882712
Chromosome Location	chr11:46483948-46483949
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:46483527..46486367-chr11:46487935..46489569,2	MCF-7	breast:

Extended variants
information (count: 100 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs10160701	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10838602	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11038897	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11038900	0.98[EUR][1000 genomes]
rs11038906	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11038914	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11038919	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11038927	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11819869	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12272795	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12283172	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12292425	0.90[EUR][1000 genomes]
rs12295266	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12573978	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12574250	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12574668	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12575519	0.94[EUR][1000 genomes]
rs12576115	0.94[EUR][1000 genomes]
rs12576317	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12576359	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12577142	0.94[EUR][1000 genomes]
rs12578042	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1472001	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1489192	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16938506	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17197116	0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs2046768	0.96[EUR][1000 genomes]
rs2067482	0.90[AFR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2171667	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2171668	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2279465	0.96[EUR][1000 genomes]
rs2291487	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2864072	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2864076	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2902858	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34406563	0.93[EUR][1000 genomes]
rs35324223	0.83[EUR][1000 genomes]
rs35623865	0.89[EUR][1000 genomes]
rs3740974	0.96[EUR][1000 genomes]
rs3740977	0.97[EUR][1000 genomes]
rs3802888	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4307676	0.85[EUR][1000 genomes]
rs55657382	0.89[EUR][1000 genomes]
rs55661562	0.89[EUR][1000 genomes]
rs55750336	0.90[ASN][1000 genomes]
rs57535407	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58147945	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59319338	0.95[EUR][1000 genomes]
rs60722866	0.86[EUR][1000 genomes]
rs60932698	0.87[EUR][1000 genomes]
rs61882674	0.82[EUR][1000 genomes]
rs61882678	0.88[EUR][1000 genomes]
rs61882682	0.96[EUR][1000 genomes]
rs61882683	0.93[EUR][1000 genomes]
rs61882691	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61882701	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61882702	0.98[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61882706	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61882709	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61882710	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61882711	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61882720	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61882743	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61882746	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61882748	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61882750	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61882756	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61882757	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61882758	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61884262	0.83[EUR][1000 genomes]
rs61884264	0.89[EUR][1000 genomes]
rs61884271	0.87[EUR][1000 genomes]
rs61884273	0.85[EUR][1000 genomes]
rs61884274	0.85[EUR][1000 genomes]
rs6485682	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6485685	0.89[EUR][1000 genomes]
rs7108770	0.87[EUR][1000 genomes]
rs7112229	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7122039	0.90[EUR][1000 genomes]
rs7125907	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7126316	0.84[EUR][1000 genomes]
rs7126343	0.85[EUR][1000 genomes]
rs7127529	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7128092	0.85[EUR][1000 genomes]
rs7130141	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73449983	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7481312	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7484002	0.89[EUR][1000 genomes]
rs756343	0.90[ASN][1000 genomes]
rs7924401	0.90[EUR][1000 genomes]
rs7930103	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7932866	0.88[EUR][1000 genomes]
rs7936413	0.96[EUR][1000 genomes]
rs7946705	0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7951579	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7951870	0.95[EUR][1000 genomes]
rs876701	0.89[EUR][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	nsv1050614	chr11:46414720-46496732	Weak transcription Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1044225	chr11:46472580-46771102	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv541030	chr11:46472580-46771102	Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:46455200-46488800	Weak transcription	Hela-S3	cervix
2	chr11:46455400-46492200	Weak transcription	A549	lung
3	chr11:46456600-46493600	Weak transcription	Colonic Mucosa	Colon
4	chr11:46456800-46494200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr11:46456800-46515000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr11:46464200-46489200	Weak transcription	Thymus	Thymus
7	chr11:46464200-46489400	Weak transcription	Fetal Muscle Trunk	muscle
8	chr11:46464200-46513000	Weak transcription	Primary hematopoietic stem cells	blood
9	chr11:46464400-46489600	Weak transcription	Placenta	Placenta
10	chr11:46465000-46513400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr11:46465200-46489200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr11:46465200-46489400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr11:46465200-46489400	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr11:46465200-46489400	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr11:46465200-46494600	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr11:46465200-46504400	Weak transcription	Primary monocytes fromperipheralblood	blood
17	chr11:46465400-46489400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr11:46465600-46489400	Weak transcription	Primary T helper cells PMA-I stimulated	--
19	chr11:46465600-46511200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr11:46465800-46486800	Weak transcription	Primary T helper cells fromperipheralblood	blood
21	chr11:46466000-46488800	Weak transcription	Dnd41	blood
22	chr11:46466200-46496200	Weak transcription	GM12878-XiMat	blood
23	chr11:46468000-46493600	Weak transcription	Right Ventricle	heart
24	chr11:46468400-46485400	Weak transcription	Right Atrium	heart
25	chr11:46468400-46489400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr11:46468400-46492200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr11:46468600-46489400	Weak transcription	Stomach Smooth Muscle	stomach
28	chr11:46468600-46493800	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr11:46468800-46485400	Weak transcription	Fetal Stomach	stomach
30	chr11:46470400-46489000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr11:46470800-46497600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
32	chr11:46473000-46493600	Weak transcription	Ovary	ovary
33	chr11:46473200-46485000	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr11:46473200-46485000	Weak transcription	Fetal Heart	heart
35	chr11:46473200-46485800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr11:46473200-46490200	Weak transcription	Rectal Smooth Muscle	rectum
37	chr11:46473200-46492200	Weak transcription	NH-A	brain
38	chr11:46473200-46492400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr11:46475600-46486400	Weak transcription	Duodenum Mucosa	Duodenum
40	chr11:46475600-46487200	Weak transcription	Stomach Mucosa	stomach
41	chr11:46476800-46486200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr11:46477600-46485000	Weak transcription	Primary B cells from peripheral blood	blood
43	chr11:46477600-46485400	Weak transcription	Brain Anterior Caudate	brain
44	chr11:46478000-46488600	Weak transcription	Primary B cells from cord blood	blood
45	chr11:46478000-46489400	Weak transcription	Primary T cells from cord blood	blood
46	chr11:46478400-46485400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr11:46478400-46504800	Weak transcription	Fetal Kidney	kidney
48	chr11:46478600-46485400	Weak transcription	Fetal Brain Female	brain
49	chr11:46478800-46485200	Weak transcription	Left Ventricle	heart
50	chr11:46478800-46485400	Weak transcription	Brain Inferior Temporal Lobe	brain

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