Variant report

Variant	rs10259250
Chromosome Location	chr7:5247034-5247035
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	chr7:5234807..5238280-chr7:5245330..5248670,4	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10261614	0.80[AFR][1000 genomes]
rs10261752	0.82[AFR][1000 genomes]
rs10270555	0.88[AFR][1000 genomes]
rs28605777	1.00[AMR][1000 genomes]
rs7805752	0.82[AFR][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	nsv530968	chr7:4572250-5418004	Weak transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv869165	chr7:4889618-5799719	Weak transcription Genic enhancers Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	352 gene(s)	inside rSNPs	diseases
3	nsv530979	chr7:5101631-5864814	Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription 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 miRNA miRNA target site	350 gene(s)	inside rSNPs	diseases
4	nsv1031007	chr7:5101766-5262695	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
5	nsv916396	chr7:5128917-5370805	Strong transcription Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Enhancers 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 miRNA target site	20 gene(s)	inside rSNPs	diseases
6	nsv530981	chr7:5157150-5920006	Weak transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	348 gene(s)	inside rSNPs	diseases
7	nsv1015639	chr7:5209510-5255399	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
8	nsv887390	chr7:5224407-5411296	Strong transcription Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
9	nsv887391	chr7:5224407-5572132	Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	292 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:5231200-5249200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr7:5231200-5254200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr7:5231400-5253800	Weak transcription	Fetal Kidney	kidney
4	chr7:5231400-5279800	Weak transcription	Fetal Brain Male	brain
5	chr7:5231600-5252600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr7:5231800-5249800	Weak transcription	Brain Angular Gyrus	brain
7	chr7:5231800-5254200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr7:5231800-5273400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr7:5232000-5257200	Strong transcription	Monocytes-CD14+_RO01746	blood
10	chr7:5232200-5256600	Weak transcription	Small Intestine	intestine
11	chr7:5232400-5247200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr7:5232400-5256200	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr7:5232600-5254000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr7:5233000-5247200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
15	chr7:5233000-5255200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr7:5233800-5250400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr7:5234000-5250400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr7:5234000-5274800	Weak transcription	Stomach Mucosa	stomach
19	chr7:5235000-5248000	Weak transcription	Rectal Smooth Muscle	rectum
20	chr7:5237400-5247800	Strong transcription	Fetal Intestine Small	intestine
21	chr7:5237400-5257400	Strong transcription	Primary monocytes fromperipheralblood	blood
22	chr7:5237400-5258200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr7:5237400-5272600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr7:5237400-5273400	Strong transcription	Dnd41	blood
25	chr7:5237600-5247800	Strong transcription	Fetal Stomach	stomach
26	chr7:5237800-5247200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr7:5238600-5247400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr7:5239000-5247200	Strong transcription	Liver	Liver
29	chr7:5239000-5267800	Strong transcription	Fetal Intestine Large	intestine
30	chr7:5239000-5270800	Strong transcription	Placenta	Placenta
31	chr7:5239400-5247400	Strong transcription	HUES6 Cell Line	embryonic stem cell
32	chr7:5240000-5249000	Weak transcription	K562	blood
33	chr7:5240200-5251400	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr7:5240400-5250400	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr7:5240600-5249200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr7:5240600-5249200	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr7:5240600-5250000	Weak transcription	Brain Hippocampus Middle	brain
38	chr7:5240600-5250400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr7:5240800-5249000	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr7:5240800-5249400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
41	chr7:5240800-5249600	Weak transcription	Right Ventricle	heart
42	chr7:5240800-5250000	Weak transcription	Aorta	Aorta
43	chr7:5240800-5254000	Weak transcription	Colonic Mucosa	Colon
44	chr7:5241000-5249600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
45	chr7:5241000-5265600	Weak transcription	Psoas Muscle	Psoas
46	chr7:5241200-5249200	Weak transcription	Skeletal Muscle Female	skeletal muscle
47	chr7:5241200-5250000	Weak transcription	NHEK	skin
48	chr7:5241400-5249200	Weak transcription	Rectal Mucosa Donor 31	rectum
49	chr7:5241400-5250000	Weak transcription	Brain Substantia Nigra	brain
50	chr7:5242000-5249600	Weak transcription	Colon Smooth Muscle	Colon

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