Variant report

Variant	rs56250749
Chromosome Location	chr7:4278529-4278530
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	chr7:4277127..4279209-chr7:4282111..4283928,2	MCF-7	breast:

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10487575	0.85[EUR][1000 genomes]
rs10951486	0.87[EUR][1000 genomes]
rs12386762	0.87[EUR][1000 genomes]
rs12386764	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12531029	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12701504	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12701516	0.92[EUR][1000 genomes]
rs13226493	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13228974	0.92[EUR][1000 genomes]
rs13229094	0.85[EUR][1000 genomes]
rs13231488	0.86[EUR][1000 genomes]
rs13242033	0.82[EUR][1000 genomes]
rs13247068	0.88[EUR][1000 genomes]
rs34177767	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34670163	0.91[EUR][1000 genomes]
rs34861141	0.93[EUR][1000 genomes]
rs34931244	0.84[AFR][1000 genomes]
rs35168770	0.86[EUR][1000 genomes]
rs35399365	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35527356	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35863749	0.91[EUR][1000 genomes]
rs35913974	0.93[EUR][1000 genomes]
rs4723519	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4723528	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4723539	0.88[EUR][1000 genomes]
rs4723545	0.85[EUR][1000 genomes]
rs67819850	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6946599	0.83[EUR][1000 genomes]
rs6966643	0.87[EUR][1000 genomes]
rs71527479	0.94[EUR][1000 genomes]
rs7781965	0.82[EUR][1000 genomes]
rs929371	0.93[EUR][1000 genomes]
rs929372	0.86[EUR][1000 genomes]
rs929373	0.86[EUR][1000 genomes]
rs929374	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:21 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021650	chr7:3665232-4577439	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1029406	chr7:3860894-4477095	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv538685	chr7:3860894-4477095	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1026410	chr7:3869104-4383606	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv464274	chr7:3955516-4613607	Weak transcription Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv464275	chr7:3955516-4613607	Enhancers Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv464276	chr7:3955516-4613607	Strong transcription Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv464277	chr7:3955516-4613607	Enhancers Bivalent Enhancer Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv464278	chr7:3955516-4613607	Strong transcription Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv605939	chr7:3955516-4613607	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv917252	chr7:4017819-4374090	Weak transcription Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv527624	chr7:4027536-4424054	Enhancers ZNF genes & repeats Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv869540	chr7:4063875-4302040	Enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
14	nsv518299	chr7:4116665-4286597	Strong transcription Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	nsv949581	chr7:4166659-4485938	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
16	esv1820543	chr7:4167991-4286597	Weak transcription Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
17	nsv887341	chr7:4167991-4298625	Genic enhancers Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
18	nsv887342	chr7:4182850-4293524	Genic enhancers Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
19	nsv1023367	chr7:4192258-4306053	Bivalent Enhancer Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
20	nsv887344	chr7:4211696-4393478	Enhancers Weak transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
21	nsv1030157	chr7:4272488-4311316	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:4235800-4287200	Weak transcription	Gastric	stomach
2	chr7:4244400-4283800	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr7:4244800-4283800	Weak transcription	Right Ventricle	heart
4	chr7:4255800-4284200	Weak transcription	Colon Smooth Muscle	Colon
5	chr7:4256000-4283800	Weak transcription	Adipose Nuclei	Adipose
6	chr7:4256400-4283800	Weak transcription	Stomach Smooth Muscle	stomach
7	chr7:4259800-4283600	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr7:4261200-4285000	Weak transcription	Rectal Smooth Muscle	rectum
9	chr7:4263800-4281200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr7:4265200-4283600	Weak transcription	Fetal Lung	lung
11	chr7:4266200-4279200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr7:4267800-4281200	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr7:4267800-4284400	Weak transcription	Fetal Brain Female	brain
14	chr7:4268000-4291800	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr7:4268200-4284000	Weak transcription	Fetal Muscle Leg	muscle
16	chr7:4269200-4282600	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr7:4271000-4283400	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr7:4272800-4282600	Strong transcription	Fetal Stomach	stomach
19	chr7:4274000-4279200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr7:4274600-4281400	Weak transcription	Pancreas	Pancrea
21	chr7:4275600-4287800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr7:4275800-4279600	Weak transcription	HepG2	liver
23	chr7:4276000-4278600	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr7:4276600-4288600	Strong transcription	Aorta	Aorta
25	chr7:4277400-4281200	Weak transcription	Spleen	Spleen
26	chr7:4277600-4279400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr7:4277600-4279800	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr7:4277600-4281400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr7:4277800-4279000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr7:4278000-4283800	Weak transcription	Fetal Muscle Trunk	muscle
31	chr7:4278000-4284000	Weak transcription	Fetal Intestine Large	intestine
32	chr7:4278200-4279400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr7:4278200-4281400	Weak transcription	Fetal Intestine Small	intestine
34	chr7:4278400-4287600	Weak transcription	Fetal Heart	heart
35	chr7:4278400-4296000	Weak transcription	Brain Germinal Matrix	brain

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