Variant report

Variant	rs4253146
Chromosome Location	chr10:50699768-50699769
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:50694526..50696414-chr10:50698639..50700547,2	MCF-7	breast:
2	chr10:50698101..50700651-chr10:50705011..50706943,2	K562	blood:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10399986	0.85[AMR][1000 genomes]
rs10400121	0.85[AMR][1000 genomes]
rs17010116	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2229761	1.00[EUR][1000 genomes]
rs4253017	1.00[AMR][1000 genomes]
rs4253022	1.00[EUR][1000 genomes]
rs4253025	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4253037	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4253052	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4253058	1.00[EUR][1000 genomes]
rs4253068	1.00[EUR][1000 genomes]
rs4253074	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4253075	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4253096	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4253111	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4253125	1.00[EUR][1000 genomes]
rs4253143	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4253163	1.00[EUR][1000 genomes]
rs4253180	1.00[EUR][1000 genomes]
rs4253191	1.00[EUR][1000 genomes]
rs4253197	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4253221	1.00[EUR][1000 genomes]
rs57612136	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58927526	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61352664	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61476133	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7075294	1.00[EUR][1000 genomes]
rs73296102	0.80[AFR][1000 genomes]
rs73297711	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73297712	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73297721	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73297730	1.00[EUR][1000 genomes]
rs73297732	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73297734	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73297740	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73297743	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73297744	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73297746	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73305578	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73305599	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73311019	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895375	chr10:50306386-51028871	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
2	nsv534410	chr10:50317458-50826916	Weak transcription Bivalent Enhancer Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	nsv831867	chr10:50607857-50788751	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	esv3346476	chr10:50610853-50987802	Bivalent/Poised TSS Bivalent Enhancer Active TSS Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
5	esv3385048	chr10:50610942-50988537	Flanking Bivalent TSS/Enh Genic enhancers Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
6	nsv1051636	chr10:50675292-50732280	Strong transcription ZNF genes & repeats Enhancers Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:50667800-50707400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
2	chr10:50668000-50713400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr10:50685000-50723400	Weak transcription	NHLF	lung
4	chr10:50686200-50705400	Weak transcription	Brain Germinal Matrix	brain
5	chr10:50686400-50707200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr10:50686400-50710600	Weak transcription	Psoas Muscle	Psoas
7	chr10:50686400-50716400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr10:50686400-50716600	Weak transcription	Rectal Smooth Muscle	rectum
9	chr10:50686600-50707400	Weak transcription	K562	blood
10	chr10:50686600-50715600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr10:50686600-50716000	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr10:50686600-50716200	Weak transcription	GM12878-XiMat	blood
13	chr10:50686600-50716800	Weak transcription	Brain Anterior Caudate	brain
14	chr10:50686600-50723200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr10:50686600-50727600	Weak transcription	Fetal Brain Male	brain
16	chr10:50686600-50731000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr10:50686800-50707400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr10:50688200-50717000	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr10:50689200-50716200	Weak transcription	Brain Substantia Nigra	brain
20	chr10:50690200-50703000	Weak transcription	Thymus	Thymus
21	chr10:50690200-50703600	Weak transcription	Pancreas	Pancrea
22	chr10:50690200-50718000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr10:50690200-50724000	Weak transcription	Fetal Muscle Trunk	muscle
24	chr10:50690200-50728200	Weak transcription	Colonic Mucosa	Colon
25	chr10:50690400-50700200	Weak transcription	Spleen	Spleen
26	chr10:50690400-50710400	Weak transcription	Fetal Muscle Leg	muscle
27	chr10:50690400-50715800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr10:50690400-50716400	Weak transcription	Stomach Smooth Muscle	stomach
29	chr10:50690400-50723400	Weak transcription	Right Ventricle	heart
30	chr10:50690600-50715800	Weak transcription	Brain Cingulate Gyrus	brain
31	chr10:50690600-50716000	Weak transcription	Colon Smooth Muscle	Colon
32	chr10:50690600-50723800	Weak transcription	Fetal Lung	lung
33	chr10:50690800-50723600	Weak transcription	Fetal Brain Female	brain
34	chr10:50690800-50726200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr10:50691000-50699800	Weak transcription	Hela-S3	cervix
36	chr10:50691000-50700800	Weak transcription	Esophagus	oesophagus
37	chr10:50691000-50724400	Weak transcription	Lung	lung
38	chr10:50691000-50728200	Weak transcription	Gastric	stomach
39	chr10:50691200-50713000	Weak transcription	Primary monocytes fromperipheralblood	blood
40	chr10:50691400-50706200	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr10:50691400-50706600	Weak transcription	Monocytes-CD14+_RO01746	blood
42	chr10:50691600-50700200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
43	chr10:50691600-50700400	Weak transcription	Fetal Intestine Large	intestine
44	chr10:50691600-50700600	Weak transcription	Primary T cells fromperipheralblood	blood
45	chr10:50691600-50700800	Weak transcription	Primary B cells from cord blood	blood
46	chr10:50691600-50701400	Weak transcription	Ovary	ovary
47	chr10:50691600-50701800	Weak transcription	Primary T helper cells PMA-I stimulated	--
48	chr10:50691600-50704000	Weak transcription	Aorta	Aorta
49	chr10:50691600-50706400	Weak transcription	Left Ventricle	heart
50	chr10:50691600-50707400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

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