Variant report

Variant	rs6416051
Chromosome Location	chr11:10409041-10409042
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	chr11:10408455..10411116-chr11:10414237..10415892,3	MCF-7	breast:
2	chr11:10388047..10388889-chr11:10408886..10409883,3	MCF-7	breast:

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10770108	0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11042762	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11042769	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11042770	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11042772	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11042773	0.80[AFR][1000 genomes]
rs12365418	0.81[AFR][1000 genomes]
rs1597448	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1597449	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16907747	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2198008	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2198009	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2198010	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2403305	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2403306	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2923085	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2923086	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2923087	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2923088	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2923115	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2923116	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2923117	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2923120	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2923121	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2923122	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2923124	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2923125	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2957658	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2957664	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2957665	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2957666	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2957667	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2957668	0.90[ASN][1000 genomes]
rs2957669	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2957670	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2957675	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2957677	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2957678	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2957679	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4910129	0.80[ASN][1000 genomes]
rs5015228	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7112833	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7117816	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7117951	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7934497	0.95[CHB][hapmap];0.87[ASN][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	nsv430319	chr11:10027543-10711224	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
2	nsv1037131	chr11:10401998-10429998	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv553477	chr11:10403539-10429998	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:10407200-10410000	Enhancers	HSMM	muscle
2	chr11:10407200-10410400	Enhancers	Skeletal Muscle Female	skeletal muscle
3	chr11:10407200-10410600	Enhancers	Skeletal Muscle Male	skeletal muscle
4	chr11:10407200-10410800	Enhancers	Colon Smooth Muscle	Colon
5	chr11:10407200-10411000	Enhancers	Ovary	ovary
6	chr11:10407200-10411000	Enhancers	NHLF	lung
7	chr11:10407200-10412800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr11:10407200-10412800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr11:10407200-10412800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr11:10407200-10412800	Enhancers	Adipose Nuclei	Adipose
11	chr11:10407400-10410400	Enhancers	Rectal Smooth Muscle	rectum
12	chr11:10407400-10411000	Enhancers	Fetal Stomach	stomach
13	chr11:10407600-10409400	Weak transcription	Lung	lung
14	chr11:10407600-10409400	Weak transcription	Right Atrium	heart
15	chr11:10407600-10410000	Enhancers	HSMMtube	muscle
16	chr11:10407800-10412200	Enhancers	NHDF-Ad	bronchial
17	chr11:10408200-10409800	Enhancers	Cortex derived primary cultured neurospheres	brain
18	chr11:10408200-10410000	Flanking Active TSS	Stomach Smooth Muscle	stomach
19	chr11:10408400-10409200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr11:10408400-10409600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr11:10408400-10410200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr11:10408400-10410400	Enhancers	Fetal Lung	lung
23	chr11:10408400-10410600	Enhancers	Esophagus	oesophagus
24	chr11:10408400-10411400	Enhancers	Placenta Amnion	Placenta Amnion
25	chr11:10408600-10409400	Weak transcription	Colonic Mucosa	Colon
26	chr11:10408600-10410000	Enhancers	NH-A	brain
27	chr11:10408600-10410200	Enhancers	Duodenum Smooth Muscle	Duodenum
28	chr11:10408600-10410400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr11:10408600-10413200	Enhancers	Placenta	Placenta
30	chr11:10408800-10409400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr11:10408800-10409400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
32	chr11:10408800-10409600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr11:10408800-10409600	Enhancers	Rectal Mucosa Donor 29	rectum
34	chr11:10408800-10409600	Enhancers	Right Ventricle	heart
35	chr11:10408800-10409800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
36	chr11:10408800-10410400	Bivalent Enhancer	Fetal Muscle Leg	muscle
37	chr11:10409000-10409400	Enhancers	Brain Hippocampus Middle	brain
38	chr11:10409000-10409400	Enhancers	Osteobl	bone
39	chr11:10409000-10410200	Enhancers	Fetal Intestine Large	intestine
40	chr11:10409000-10410200	Enhancers	Fetal Thymus	thymus
41	chr11:10409000-10410200	Enhancers	A549	lung
42	chr11:10409000-10410600	Enhancers	Fetal Intestine Small	intestine
43	chr11:10409000-10410800	Enhancers	Muscle Satellite Cultured Cells	--
44	chr11:10409000-10412600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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