Variant report

Variant	rs12256540
Chromosome Location	chr10:91129673-91129674
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:91019839..91020750-chr10:91128976..91129904,3	K562	blood:
2	chr10:91019777..91020866-chr10:91128531..91129985,10	MCF-7	breast:
3	chr10:91053117..91053899-chr10:91128973..91129755,4	MCF-7	breast:
4	chr10:91037797..91038717-chr10:91129170..91129836,2	MCF-7	breast:
5	chr10:91019711..91020808-chr10:91128397..91129939,7	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10159717	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11203082	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11203083	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11203087	0.83[EUR][1000 genomes]
rs11203091	1.00[YRI][hapmap];0.83[EUR][1000 genomes]
rs11203093	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11203095	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11203100	0.85[YRI][hapmap]
rs12242873	1.00[AMR][1000 genomes]
rs12243051	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12243721	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12243856	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12245646	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12250550	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12250610	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12251678	1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12252455	1.00[AMR][1000 genomes]
rs12255221	0.87[AFR][1000 genomes]
rs12259825	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12259887	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12263019	1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12263584	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12267215	0.83[EUR][1000 genomes]
rs12268333	0.83[EUR][1000 genomes]
rs12269110	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59633641	1.00[EUR][1000 genomes]
rs7074809	1.00[EUR][1000 genomes]
rs7079179	1.00[EUR][1000 genomes]
rs7090951	1.00[EUR][1000 genomes]
rs7910157	1.00[EUR][1000 genomes]
rs7910817	1.00[YRI][hapmap]
rs7912070	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs7919999	1.00[EUR][1000 genomes]
rs7922439	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv1041964	chr10:90861380-91378356	Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
4	nsv1040375	chr10:91022218-91153074	Enhancers Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	esv34085	chr10:91065949-91174175	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91119600-91133800	Weak transcription	Pancreas	Pancrea
2	chr10:91124000-91130400	Weak transcription	K562	blood
3	chr10:91127000-91130000	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr10:91127000-91130200	Enhancers	Liver	Liver
5	chr10:91127200-91129800	Enhancers	Brain Cingulate Gyrus	brain
6	chr10:91127200-91129800	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr10:91127200-91129800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
8	chr10:91127200-91129800	Enhancers	Fetal Intestine Small	intestine
9	chr10:91127400-91129800	Enhancers	Placenta	Placenta
10	chr10:91127400-91130000	Enhancers	Fetal Muscle Leg	muscle
11	chr10:91127600-91129800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr10:91127800-91129800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr10:91127800-91133400	Weak transcription	Fetal Kidney	kidney
14	chr10:91127800-91134200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr10:91128200-91133200	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr10:91128200-91133800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr10:91128200-91133800	Weak transcription	Small Intestine	intestine
18	chr10:91128400-91129800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr10:91128800-91129800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr10:91128800-91129800	Enhancers	Fetal Heart	heart
21	chr10:91129000-91129800	Enhancers	iPS-20b Cell Line	embryonic stem cell
22	chr10:91129000-91129800	Enhancers	Fetal Intestine Large	intestine
23	chr10:91129000-91129800	Enhancers	Skeletal Muscle Male	skeletal muscle
24	chr10:91129200-91130000	Weak transcription	Primary hematopoietic stem cells	blood
25	chr10:91129200-91131800	Weak transcription	Right Atrium	heart
26	chr10:91129200-91133200	Weak transcription	Ovary	ovary
27	chr10:91129200-91133200	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr10:91129200-91133200	Weak transcription	NHLF	lung
29	chr10:91129200-91133800	Weak transcription	Aorta	Aorta
30	chr10:91129200-91133800	Weak transcription	Psoas Muscle	Psoas
31	chr10:91129200-91134400	Weak transcription	Lung	lung
32	chr10:91129400-91129800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr10:91129400-91129800	Enhancers	Brain Angular Gyrus	brain
34	chr10:91129400-91129800	Enhancers	Brain Substantia Nigra	brain
35	chr10:91129400-91131000	Weak transcription	HSMMtube	muscle
36	chr10:91129400-91131600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
37	chr10:91129400-91131600	Weak transcription	Fetal Lung	lung
38	chr10:91129400-91132400	Weak transcription	Adipose Nuclei	Adipose
39	chr10:91129400-91132400	Weak transcription	Hela-S3	cervix
40	chr10:91129400-91133000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr10:91129400-91133000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr10:91129400-91133000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr10:91129400-91133200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr10:91129400-91133200	Weak transcription	Muscle Satellite Cultured Cells	--
45	chr10:91129400-91133200	Weak transcription	Colon Smooth Muscle	Colon
46	chr10:91129400-91133200	Weak transcription	Duodenum Mucosa	Duodenum
47	chr10:91129400-91133200	Weak transcription	Duodenum Smooth Muscle	Duodenum
48	chr10:91129400-91133200	Weak transcription	Fetal Stomach	stomach
49	chr10:91129400-91133200	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr10:91129400-91133200	Weak transcription	Skeletal Muscle Female	skeletal muscle

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