Variant report

Variant	rs1409305
Chromosome Location	chr10:25264523-25264524
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:25258984..25265341-chr10:25266551..25271124,6	MCF-7	breast:
2	chr10:25245687..25248875-chr10:25261943..25265245,3	MCF-7	breast:
3	chr10:25254805..25256988-chr10:25262372..25264667,2	K562	blood:
4	chr10:25244301..25246252-chr10:25263526..25265858,2	K562	blood:
5	chr10:25263858..25265839-chr10:25269718..25271619,2	K562	blood:

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs1124490	1.00[EUR][1000 genomes]
rs12241288	1.00[EUR][1000 genomes]
rs12248877	0.86[EUR][1000 genomes]
rs12261100	0.93[EUR][1000 genomes]
rs1388926	0.93[EUR][1000 genomes]
rs1552772	1.00[EUR][1000 genomes]
rs16925193	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925198	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3808907	0.87[EUR][1000 genomes]
rs41279882	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41279886	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41279890	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41279894	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41304607	0.93[EUR][1000 genomes]
rs41307498	0.93[EUR][1000 genomes]
rs55788231	0.93[EUR][1000 genomes]
rs57639701	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57642444	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57695610	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58164169	0.87[EUR][1000 genomes]
rs58320082	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59189661	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59876862	0.93[EUR][1000 genomes]
rs60880723	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61278248	1.00[EUR][1000 genomes]
rs61585865	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6482464	1.00[EUR][1000 genomes]
rs7072278	0.80[EUR][1000 genomes]
rs7073171	0.93[EUR][1000 genomes]
rs7075327	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7080371	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7083691	0.93[EUR][1000 genomes]
rs7099168	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73606594	0.93[EUR][1000 genomes]
rs73606599	1.00[EUR][1000 genomes]
rs73606600	1.00[EUR][1000 genomes]
rs73608203	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608204	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608206	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608208	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608210	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73608211	1.00[EUR][1000 genomes]
rs73608212	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608213	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608214	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73608216	0.93[EUR][1000 genomes]
rs73608217	0.93[EUR][1000 genomes]
rs73608218	0.93[EUR][1000 genomes]
rs73608219	0.93[EUR][1000 genomes]
rs73608223	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608224	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608225	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608226	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73608229	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608233	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608234	1.00[EUR][1000 genomes]
rs73608235	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608236	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608237	1.00[EUR][1000 genomes]
rs73608238	1.00[EUR][1000 genomes]
rs73608239	1.00[EUR][1000 genomes]
rs73608240	1.00[EUR][1000 genomes]
rs73608241	1.00[EUR][1000 genomes]
rs7905478	1.00[EUR][1000 genomes]
rs7920527	0.93[EUR][1000 genomes]
rs9663998	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1053278	chr10:25140776-25269093	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25259200-25269000	Weak transcription	Brain Anterior Caudate	brain
2	chr10:25262400-25269200	Weak transcription	Brain Hippocampus Middle	brain
3	chr10:25263400-25264600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr10:25263400-25264600	Enhancers	Osteobl	bone
5	chr10:25263400-25264800	Enhancers	NHDF-Ad	bronchial
6	chr10:25263400-25265400	Enhancers	Fetal Lung	lung
7	chr10:25263400-25272000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr10:25263600-25265200	Enhancers	NHLF	lung
9	chr10:25263800-25264600	Enhancers	Ovary	ovary
10	chr10:25264000-25265200	Enhancers	Fetal Muscle Leg	muscle
11	chr10:25264200-25264600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr10:25264200-25264800	Enhancers	Brain Substantia Nigra	brain
13	chr10:25264400-25264600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr10:25264400-25264600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr10:25264400-25264600	Enhancers	Gastric	stomach
16	chr10:25264400-25267200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr10:25264400-25271600	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr10:25264400-25277600	Weak transcription	Brain Cingulate Gyrus	brain
19	chr10:25264400-25277800	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr10:25264400-25281800	Weak transcription	Fetal Intestine Small	intestine

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