Variant report

Variant	rs12891857
Chromosome Location	chr14:25381442-25381443
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	chr14:25379876..25382458-chr14:25394201..25396372,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11847012	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1241598	0.93[CHB][hapmap]
rs12586425	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12588743	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12880456	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12880978	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12883258	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12885474	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12886704	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12887754	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12889054	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12893418	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12896576	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17185369	1.00[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17185376	1.00[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17185397	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17257556	0.86[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17257577	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1951800	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs58423583	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7154597	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7155229	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs74040723	0.97[ASN][1000 genomes]
rs8003472	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][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	nsv1041336	chr14:24726564-25527319	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
2	nsv542000	chr14:24726564-25527319	Genic enhancers Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv901504	chr14:25184210-25646203	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv1041445	chr14:25326692-25388290	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv901508	chr14:25365505-25451903	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:25372600-25382400	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr14:25377000-25382000	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr14:25379400-25397800	Weak transcription	Right Ventricle	heart
4	chr14:25380400-25381600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr14:25380400-25382600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr14:25380600-25381600	Enhancers	Rectal Smooth Muscle	rectum
7	chr14:25381000-25383000	Weak transcription	Psoas Muscle	Psoas
8	chr14:25381000-25383000	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr14:25381000-25385400	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr14:25381000-25389800	Weak transcription	Left Ventricle	heart
11	chr14:25381200-25381600	Enhancers	Muscle Satellite Cultured Cells	--
12	chr14:25381200-25381600	Enhancers	Colonic Mucosa	Colon
13	chr14:25381200-25382400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr14:25381200-25382600	Enhancers	Fetal Lung	lung
15	chr14:25381200-25383600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr14:25381200-25384000	Enhancers	HSMM	muscle
17	chr14:25381200-25384600	Enhancers	Brain Angular Gyrus	brain
18	chr14:25381200-25384800	Enhancers	Brain Anterior Caudate	brain
19	chr14:25381200-25385200	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr14:25381200-25385200	Weak transcription	A549	lung
21	chr14:25381200-25385400	Weak transcription	Stomach Mucosa	stomach
22	chr14:25381200-25387800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr14:25381200-25388200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr14:25381200-25389800	Weak transcription	Pancreas	Pancrea
25	chr14:25381400-25381600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr14:25381400-25381600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr14:25381400-25381600	Enhancers	Brain Inferior Temporal Lobe	brain
28	chr14:25381400-25381600	Enhancers	Monocytes-CD14+_RO01746	blood
29	chr14:25381400-25381800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr14:25381400-25382200	Weak transcription	Brain Cingulate Gyrus	brain
31	chr14:25381400-25382200	Weak transcription	Brain Hippocampus Middle	brain
32	chr14:25381400-25382200	Weak transcription	Brain Substantia Nigra	brain
33	chr14:25381400-25383000	Weak transcription	Fetal Heart	heart
34	chr14:25381400-25383800	Weak transcription	Pancreatic Islets	Pancreatic Islet
35	chr14:25381400-25383800	Weak transcription	HSMMtube	muscle
36	chr14:25381400-25384000	Weak transcription	HepG2	liver
37	chr14:25381400-25385600	Weak transcription	Colon Smooth Muscle	Colon
38	chr14:25381400-25397800	Weak transcription	Fetal Intestine Small	intestine

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