Variant report

Variant	rs3088325
Chromosome Location	chr14:25281682-25281683
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	chr14:25279193..25282609-chr14:25287302..25290092,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168952	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10483288	1.00[ASN][1000 genomes]
rs11850146	1.00[ASN][1000 genomes]
rs12878069	1.00[ASN][1000 genomes]
rs12879077	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12879323	1.00[ASN][1000 genomes]
rs12881201	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12881381	1.00[ASN][1000 genomes]
rs12885468	1.00[ASN][1000 genomes]
rs12886050	1.00[ASN][1000 genomes]
rs12886059	1.00[ASN][1000 genomes]
rs12886766	1.00[ASN][1000 genomes]
rs12893363	1.00[ASN][1000 genomes]
rs12893496	1.00[ASN][1000 genomes]
rs12895258	1.00[ASN][1000 genomes]
rs12897835	1.00[ASN][1000 genomes]
rs1461645	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1551775	1.00[ASN][1000 genomes]
rs17108566	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17108738	1.00[CEU][hapmap];0.91[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17109263	0.85[CEU][hapmap];1.00[ASN][1000 genomes]
rs17795652	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34164371	1.00[ASN][1000 genomes]
rs34604102	1.00[ASN][1000 genomes]
rs35779777	1.00[ASN][1000 genomes]
rs4097492	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4983020	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4983021	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4983025	1.00[ASN][1000 genomes]
rs71405872	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8018441	1.00[ASN][1000 genomes]
rs854340	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 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	nsv901505	chr14:25237268-25360584	Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1035284	chr14:25267840-25285191	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
6	nsv542003	chr14:25267840-25285191	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
7	nsv525203	chr14:25270335-25282967	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
8	nsv456169	chr14:25270335-25288227	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
9	nsv564071	chr14:25270335-25288227	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:25272400-25283400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr14:25274000-25283000	Weak transcription	Gastric	stomach
3	chr14:25275200-25285000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr14:25275400-25285000	Weak transcription	Lung	lung
5	chr14:25276200-25282000	Weak transcription	Fetal Brain Female	brain
6	chr14:25276200-25285400	Weak transcription	Adipose Nuclei	Adipose
7	chr14:25276200-25286600	Weak transcription	Colon Smooth Muscle	Colon
8	chr14:25276600-25284800	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr14:25276800-25284800	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr14:25277200-25282400	Enhancers	Fetal Lung	lung
11	chr14:25277800-25286600	Weak transcription	Placenta	Placenta
12	chr14:25278000-25286400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr14:25278400-25283200	Weak transcription	Right Ventricle	heart
14	chr14:25278600-25283200	Enhancers	Liver	Liver
15	chr14:25278600-25283800	Enhancers	Fetal Intestine Small	intestine
16	chr14:25278600-25287600	Enhancers	Fetal Intestine Large	intestine
17	chr14:25278800-25284800	Weak transcription	HSMM	muscle
18	chr14:25279200-25282800	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr14:25279400-25284800	Enhancers	Fetal Heart	heart
20	chr14:25279600-25283000	Weak transcription	Small Intestine	intestine
21	chr14:25279800-25282000	Weak transcription	Stomach Mucosa	stomach
22	chr14:25279800-25282800	Weak transcription	Pancreas	Pancrea
23	chr14:25279800-25283000	Weak transcription	Left Ventricle	heart
24	chr14:25279800-25284800	Weak transcription	Fetal Kidney	kidney
25	chr14:25279800-25284800	Weak transcription	Fetal Muscle Leg	muscle
26	chr14:25279800-25284800	Weak transcription	Right Atrium	heart
27	chr14:25279800-25285600	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr14:25279800-25286400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr14:25279800-25286800	Weak transcription	Rectal Smooth Muscle	rectum
30	chr14:25279800-25287400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr14:25280000-25282000	Weak transcription	Sigmoid Colon	Sigmoid Colon
32	chr14:25280000-25282400	Weak transcription	Duodenum Mucosa	Duodenum
33	chr14:25280000-25285200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr14:25280000-25285400	Weak transcription	Brain Angular Gyrus	brain
35	chr14:25280000-25285400	Weak transcription	HSMMtube	muscle
36	chr14:25280000-25285600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr14:25280000-25285600	Weak transcription	Brain Hippocampus Middle	brain
38	chr14:25280000-25286200	Weak transcription	Brain Substantia Nigra	brain
39	chr14:25280200-25284600	Weak transcription	Stomach Smooth Muscle	stomach
40	chr14:25280600-25282000	Enhancers	iPS-15b Cell Line	embryonic stem cell
41	chr14:25280600-25282000	Weak transcription	Brain Germinal Matrix	brain
42	chr14:25280600-25286400	Weak transcription	Brain Cingulate Gyrus	brain
43	chr14:25280600-25286600	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr14:25280800-25282000	Enhancers	HUES48 Cell Line	embryonic stem cell
45	chr14:25280800-25282000	Weak transcription	HepG2	liver
46	chr14:25280800-25285800	Weak transcription	Brain Anterior Caudate	brain
47	chr14:25280800-25289200	Weak transcription	Fetal Stomach	stomach
48	chr14:25281000-25281800	Enhancers	HUES64 Cell Line	embryonic stem cell
49	chr14:25281400-25282200	Enhancers	iPS-18 Cell Line	embryonic stem cell

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