Variant report

Variant	rs1124490
Chromosome Location	chr10:25247739-25247740
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:25011850..25014500-chr10:25246674..25248679,2	MCF-7	breast:
2	chr10:25245687..25248875-chr10:25261943..25265245,3	MCF-7	breast:
3	chr10:25245793..25250014-chr10:25304011..25307329,4	MCF-7	breast:
4	chr10:25011700..25014356-chr10:25245305..25247951,2	K562	blood:
5	chr10:25242420..25244557-chr10:25246178..25248429,2	MCF-7	breast:
6	chr10:25245492..25247955-chr10:25250126..25255906,6	K562	blood:
7	chr10:25183976..25186724-chr10:25246241..25248282,2	K562	blood:
8	chr10:25246877..25249016-chr10:25275912..25277898,2	K562	blood:
9	chr10:25246322..25248329-chr10:25271601..25273321,2	K562	blood:
10	chr10:25247331..25249191-chr10:25250892..25252759,2	MCF-7	breast:
11	chr10:25242028..25244551-chr10:25245660..25248271,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000151023	Chromatin interaction
ENSG00000107863	Chromatin interaction
ENSG00000273107	Chromatin interaction
ENSG00000185875	Chromatin interaction

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

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

rs_ID	r²[population]
rs12241288	1.00[EUR][1000 genomes]
rs12248877	0.86[EUR][1000 genomes]
rs12261100	0.93[EUR][1000 genomes]
rs1388926	0.93[EUR][1000 genomes]
rs1409305	1.00[EUR][1000 genomes]
rs1552772	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs16925193	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16925198	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3808907	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs41279882	1.00[EUR][1000 genomes]
rs41279886	1.00[EUR][1000 genomes]
rs41279890	1.00[EUR][1000 genomes]
rs41279894	1.00[EUR][1000 genomes]
rs41304607	0.93[EUR][1000 genomes]
rs41307498	0.93[EUR][1000 genomes]
rs55788231	0.93[EUR][1000 genomes]
rs57639701	1.00[EUR][1000 genomes]
rs57642444	1.00[EUR][1000 genomes]
rs57695610	1.00[EUR][1000 genomes]
rs58164169	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs58320082	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59189661	1.00[EUR][1000 genomes]
rs59876862	0.93[EUR][1000 genomes]
rs60880723	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61278248	1.00[EUR][1000 genomes]
rs61585865	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6482464	1.00[CEU][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7072278	0.80[EUR][1000 genomes]
rs7073171	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs7075327	1.00[EUR][1000 genomes]
rs7080371	0.93[EUR][1000 genomes]
rs7083691	0.93[EUR][1000 genomes]
rs7099168	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs73606594	0.93[EUR][1000 genomes]
rs73606599	1.00[EUR][1000 genomes]
rs73606600	1.00[EUR][1000 genomes]
rs73608203	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608204	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73608206	1.00[EUR][1000 genomes]
rs73608208	1.00[EUR][1000 genomes]
rs73608210	0.93[EUR][1000 genomes]
rs73608211	1.00[EUR][1000 genomes]
rs73608212	1.00[EUR][1000 genomes]
rs73608213	1.00[EUR][1000 genomes]
rs73608214	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	1.00[EUR][1000 genomes]
rs73608224	1.00[EUR][1000 genomes]
rs73608225	1.00[EUR][1000 genomes]
rs73608226	0.87[EUR][1000 genomes]
rs73608229	1.00[EUR][1000 genomes]
rs73608233	1.00[EUR][1000 genomes]
rs73608234	1.00[EUR][1000 genomes]
rs73608235	1.00[EUR][1000 genomes]
rs73608236	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	0.83[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:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25242200-25247800	Weak transcription	Aorta	Aorta
2	chr10:25242200-25247800	Weak transcription	Left Ventricle	heart
3	chr10:25242200-25248000	Weak transcription	Psoas Muscle	Psoas
4	chr10:25242400-25251400	Weak transcription	Liver	Liver
5	chr10:25242400-25252800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr10:25242600-25249000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr10:25242800-25247800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr10:25242800-25247800	Weak transcription	Right Atrium	heart
9	chr10:25242800-25251400	Weak transcription	Fetal Intestine Large	intestine
10	chr10:25242800-25251600	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr10:25243000-25251400	Weak transcription	Fetal Intestine Small	intestine
12	chr10:25245600-25248400	Enhancers	HMEC	breast
13	chr10:25245600-25248600	Enhancers	Hela-S3	cervix
14	chr10:25245800-25248400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr10:25245800-25248600	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr10:25246000-25247800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr10:25246000-25247800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr10:25246400-25248400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr10:25246400-25248600	Enhancers	Fetal Stomach	stomach
20	chr10:25246400-25248600	Enhancers	HSMM	muscle
21	chr10:25246600-25247800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr10:25246600-25248200	Enhancers	NHEK	skin
23	chr10:25246800-25248000	Enhancers	Placenta Amnion	Placenta Amnion
24	chr10:25246800-25248200	Active TSS	Brain Inferior Temporal Lobe	brain
25	chr10:25247000-25247800	Active TSS	Brain Anterior Caudate	brain
26	chr10:25247000-25248000	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr10:25247000-25248200	Flanking Active TSS	NH-A	brain
28	chr10:25247000-25249200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr10:25247200-25247800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr10:25247200-25248000	Enhancers	HUES48 Cell Line	embryonic stem cell
31	chr10:25247200-25248200	Active TSS	Brain Cingulate Gyrus	brain
32	chr10:25247200-25248200	Enhancers	Stomach Mucosa	stomach
33	chr10:25247200-25248200	Flanking Active TSS	Osteobl	bone
34	chr10:25247200-25248400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr10:25247200-25248400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr10:25247200-25248400	Enhancers	Fetal Brain Female	brain
37	chr10:25247200-25248400	Enhancers	Fetal Kidney	kidney
38	chr10:25247200-25248400	Flanking Active TSS	Fetal Lung	lung
39	chr10:25247200-25248600	Enhancers	HUES64 Cell Line	embryonic stem cell
40	chr10:25247400-25247800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr10:25247400-25247800	Active TSS	Cortex derived primary cultured neurospheres	brain
42	chr10:25247400-25247800	Active TSS	Brain Angular Gyrus	brain
43	chr10:25247400-25247800	Flanking Active TSS	Brain Hippocampus Middle	brain
44	chr10:25247400-25247800	Enhancers	Ovary	ovary
45	chr10:25247400-25247800	Flanking Active TSS	HSMMtube	muscle
46	chr10:25247400-25247800	Flanking Active TSS	HUVEC	blood vessel
47	chr10:25247400-25248000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr10:25247400-25248000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
49	chr10:25247400-25248000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr10:25247400-25248000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain

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