Variant report

Variant	rs1952493
Chromosome Location	chr14:25480958-25480959
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	chr14:25474104..25476985-chr14:25480254..25482757,2	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10133967	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10138896	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10148708	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11848412	0.92[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12018987	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17109507	0.94[YRI][hapmap];0.86[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs28565426	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28630402	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs61561953	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73595342	0.95[AFR][1000 genomes];0.83[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	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	nsv1047792	chr14:25388933-25503799	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv901509	chr14:25398571-25743484	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
6	nsv901510	chr14:25476170-25526309	Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:25476400-25485000	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr14:25477200-25483400	Weak transcription	Duodenum Mucosa	Duodenum
3	chr14:25478800-25481000	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr14:25478800-25481000	Enhancers	Fetal Intestine Small	intestine
5	chr14:25479200-25488400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr14:25479400-25483400	Weak transcription	Pancreas	Pancrea
7	chr14:25479400-25483800	Weak transcription	Brain Hippocampus Middle	brain
8	chr14:25479400-25483800	Weak transcription	Fetal Lung	lung
9	chr14:25479400-25508600	Weak transcription	Brain Anterior Caudate	brain
10	chr14:25479600-25494800	Weak transcription	Stomach Mucosa	stomach
11	chr14:25479800-25501000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr14:25480000-25482600	Weak transcription	HepG2	liver
13	chr14:25480000-25483400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr14:25480000-25483400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr14:25480000-25483400	Weak transcription	Left Ventricle	heart
16	chr14:25480000-25484400	Weak transcription	Right Ventricle	heart
17	chr14:25480000-25485000	Weak transcription	Brain Angular Gyrus	brain
18	chr14:25480000-25490000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr14:25480000-25490000	Weak transcription	Right Atrium	heart
20	chr14:25480600-25481200	Enhancers	Brain Cingulate Gyrus	brain
21	chr14:25480600-25483400	Weak transcription	Hela-S3	cervix
22	chr14:25480600-25483800	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr14:25480800-25483400	Weak transcription	Fetal Intestine Large	intestine
24	chr14:25480800-25483800	Weak transcription	Fetal Heart	heart
25	chr14:25480800-25487000	Weak transcription	Placenta Amnion	Placenta Amnion

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