Variant report

Variant	rs62570972
Chromosome Location	chr9:15429854-15429855
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:15420595..15424773-chr9:15424796..15433036,11	MCF-7	breast:
2	chr9:15429263..15431513-chr9:15449169..15450709,2	K562	blood:
3	chr9:15420090..15425077-chr9:15425243..15430966,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164975	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10962016	0.86[EUR][1000 genomes]
rs16933296	0.91[AMR][1000 genomes]
rs16933350	0.81[EUR][1000 genomes]
rs3087653	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs41268961	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs41306098	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs59355275	0.85[EUR][1000 genomes]
rs59520337	0.81[EUR][1000 genomes]
rs62570966	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62570967	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62570969	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62570970	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62570971	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62570973	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62570974	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62570975	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62570976	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62570980	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62570991	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62570992	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62570993	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62571001	0.91[AMR][1000 genomes]
rs62571002	0.91[AMR][1000 genomes]
rs62571007	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62571008	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs62571009	0.81[EUR][1000 genomes]
rs62571011	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62571015	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62571016	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62571017	0.85[EUR][1000 genomes]
rs62571018	0.81[EUR][1000 genomes]
rs62571029	0.81[EUR][1000 genomes]
rs62571033	0.85[EUR][1000 genomes]
rs62571037	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62571046	0.81[EUR][1000 genomes]
rs62571047	0.81[EUR][1000 genomes]
rs62571048	0.81[EUR][1000 genomes]
rs62573013	0.93[EUR][1000 genomes]
rs62573015	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7856523	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv517975	chr9:15286446-15534070	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	nsv1030287	chr9:15332709-15458001	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv892626	chr9:15389610-15694690	Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv892627	chr9:15397969-15909450	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	nsv831520	chr9:15404866-15444447	Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases
7	nsv892628	chr9:15420805-15528290	Strong transcription Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 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	chr9:15423600-15434400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr9:15423600-15439000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:15424000-15430200	Weak transcription	Small Intestine	intestine
4	chr9:15424000-15431000	Weak transcription	Psoas Muscle	Psoas
5	chr9:15424000-15443400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr9:15424000-15443600	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr9:15424600-15430400	Strong transcription	HUES64 Cell Line	embryonic stem cell
8	chr9:15424800-15430600	Strong transcription	HUES6 Cell Line	embryonic stem cell
9	chr9:15425000-15430000	Strong transcription	A549	lung
10	chr9:15425000-15430200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
11	chr9:15425000-15431800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr9:15425000-15437000	Strong transcription	HUES48 Cell Line	embryonic stem cell
13	chr9:15425400-15433600	Weak transcription	Fetal Kidney	kidney
14	chr9:15425400-15439000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr9:15425600-15430200	Weak transcription	Stomach Mucosa	stomach
16	chr9:15425800-15431400	Strong transcription	HUVEC	blood vessel
17	chr9:15425800-15433800	Weak transcription	HSMMtube	muscle
18	chr9:15425800-15434000	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr9:15426000-15430200	Weak transcription	Right Ventricle	heart
20	chr9:15426000-15430600	Weak transcription	Colonic Mucosa	Colon
21	chr9:15426200-15441800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr9:15426400-15430000	Weak transcription	Ovary	ovary
23	chr9:15426400-15430200	Weak transcription	Aorta	Aorta
24	chr9:15426400-15430600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr9:15426400-15430800	Weak transcription	Liver	Liver
26	chr9:15426400-15431000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr9:15426400-15431000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr9:15426400-15431000	Weak transcription	Left Ventricle	heart
29	chr9:15426400-15431000	Weak transcription	Lung	lung
30	chr9:15426400-15431000	Weak transcription	Pancreas	Pancrea
31	chr9:15426400-15433000	Weak transcription	NHLF	lung
32	chr9:15426400-15433600	Weak transcription	Primary T cells from cord blood	blood
33	chr9:15426400-15433600	Weak transcription	Thymus	Thymus
34	chr9:15426400-15434000	Weak transcription	Rectal Smooth Muscle	rectum
35	chr9:15426400-15435400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr9:15426400-15436000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr9:15426400-15439000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr9:15426400-15439800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr9:15426400-15441800	Weak transcription	Spleen	Spleen
40	chr9:15426400-15442800	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr9:15426400-15443600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr9:15426400-15443600	Weak transcription	Gastric	stomach
43	chr9:15426400-15468200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr9:15426600-15430200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr9:15426600-15430200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
46	chr9:15426600-15430600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
47	chr9:15426600-15430600	Weak transcription	Brain Anterior Caudate	brain
48	chr9:15426600-15430600	Weak transcription	Brain Germinal Matrix	brain
49	chr9:15426600-15430600	Weak transcription	Colon Smooth Muscle	Colon
50	chr9:15426600-15430600	Weak transcription	Duodenum Smooth Muscle	Duodenum

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