Variant report

Variant	rs57575764
Chromosome Location	chr10:28407961-28407962
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	chr10:28406473..28409563-chr10:28410652..28413187,3	MCF-7	breast:

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10508729	0.81[ASN][1000 genomes]
rs10508730	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12241297	0.82[ASN][1000 genomes]
rs12244891	0.82[ASN][1000 genomes]
rs12246891	0.82[ASN][1000 genomes]
rs12249305	0.81[ASN][1000 genomes]
rs12266822	0.81[ASN][1000 genomes]
rs12268225	1.00[EUR][1000 genomes]
rs12268684	0.82[ASN][1000 genomes]
rs12268764	0.82[ASN][1000 genomes]
rs12412297	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17831032	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17831062	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1937806	0.81[ASN][1000 genomes]
rs3780856	0.82[ASN][1000 genomes]
rs3780857	0.82[ASN][1000 genomes]
rs3780858	0.82[ASN][1000 genomes]
rs3802518	0.82[ASN][1000 genomes]
rs3802522	0.81[ASN][1000 genomes]
rs41306320	1.00[EUR][1000 genomes]
rs41366146	1.00[AFR][1000 genomes]
rs57170335	0.90[EUR][1000 genomes]
rs58270577	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58971480	1.00[AFR][1000 genomes]
rs59048411	0.90[EUR][1000 genomes]
rs60202642	1.00[AFR][1000 genomes]
rs60301798	1.00[EUR][1000 genomes]
rs60533406	0.89[AFR][1000 genomes]
rs60563943	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60629234	0.90[EUR][1000 genomes]
rs60695945	0.90[EUR][1000 genomes]
rs61171639	0.82[AFR][1000 genomes]
rs61702002	0.90[EUR][1000 genomes]
rs6481498	0.82[ASN][1000 genomes]
rs7090142	0.90[EUR][1000 genomes]
rs73606052	0.89[AFR][1000 genomes]
rs73606054	0.89[AFR][1000 genomes]
rs73606058	1.00[AFR][1000 genomes]
rs73606059	1.00[AFR][1000 genomes]
rs73606060	1.00[AFR][1000 genomes]
rs73606061	0.89[AFR][1000 genomes]
rs73606062	0.96[AFR][1000 genomes]
rs73606063	1.00[AFR][1000 genomes]
rs73606064	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73606066	0.93[AFR][1000 genomes]
rs73606067	1.00[AFR][1000 genomes]
rs73606068	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73606069	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73608077	1.00[EUR][1000 genomes]
rs7921547	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1042524	chr10:28290149-28506812	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv831816	chr10:28304698-28493635	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv894988	chr10:28337570-28410989	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
5	nsv525448	chr10:28337570-28563732	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv831817	chr10:28369836-28539930	Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	esv1817535	chr10:28373644-28409054	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	esv1848511	chr10:28373644-28464753	Enhancers Genic enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
9	esv1851923	chr10:28384098-28410989	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv894989	chr10:28384098-28449974	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	nsv949151	chr10:28386125-28455221	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
12	esv1845096	chr10:28405411-28423204	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28347000-28412200	Weak transcription	Left Ventricle	heart
2	chr10:28347000-28414600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr10:28364800-28416600	Weak transcription	Pancreas	Pancrea
4	chr10:28367800-28420200	Weak transcription	Rectal Smooth Muscle	rectum
5	chr10:28376000-28438400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr10:28376600-28416600	Weak transcription	Fetal Intestine Large	intestine
7	chr10:28378000-28418400	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr10:28378600-28412800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr10:28378600-28425600	Weak transcription	Colon Smooth Muscle	Colon
10	chr10:28378800-28408400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr10:28379200-28416600	Weak transcription	Fetal Intestine Small	intestine
12	chr10:28389600-28416400	Weak transcription	Primary hematopoietic stem cells	blood
13	chr10:28392200-28417000	Weak transcription	Esophagus	oesophagus
14	chr10:28392400-28416800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr10:28396200-28414400	Weak transcription	Adipose Nuclei	Adipose
16	chr10:28396400-28422400	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr10:28396800-28416600	Weak transcription	Aorta	Aorta
18	chr10:28398000-28417200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr10:28401200-28408000	Weak transcription	HUVEC	blood vessel
20	chr10:28401200-28409000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr10:28401800-28414800	Strong transcription	Monocytes-CD14+_RO01746	blood
22	chr10:28402200-28408800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr10:28403000-28409000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr10:28403400-28414800	Strong transcription	Primary monocytes fromperipheralblood	blood
25	chr10:28403600-28443200	Weak transcription	Stomach Smooth Muscle	stomach
26	chr10:28404800-28416800	Weak transcription	Fetal Stomach	stomach
27	chr10:28406000-28408000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chr10:28406200-28409200	Weak transcription	HepG2	liver
29	chr10:28406600-28413400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr10:28406600-28421600	Weak transcription	Primary B cells from cord blood	blood
31	chr10:28407000-28413400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr10:28407200-28409800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr10:28407400-28408000	Enhancers	HUES48 Cell Line	embryonic stem cell
34	chr10:28407400-28408000	Enhancers	Skeletal Muscle Male	skeletal muscle
35	chr10:28407400-28408200	Strong transcription	Duodenum Smooth Muscle	Duodenum
36	chr10:28407400-28410200	Enhancers	Hela-S3	cervix
37	chr10:28407400-28411000	Enhancers	Breast Myoepithelial Primary Cells	Breast
38	chr10:28407400-28413400	Strong transcription	Primary T helper cells PMA-I stimulated	--
39	chr10:28407400-28414200	Strong transcription	Primary T cells fromperipheralblood	blood
40	chr10:28407400-28414400	Strong transcription	Primary neutrophils fromperipheralblood	blood
41	chr10:28407600-28409200	Enhancers	HSMMtube	muscle
42	chr10:28407600-28409800	Enhancers	ES-I3 Cell Line	embryonic stem cell
43	chr10:28407600-28410000	Weak transcription	Right Ventricle	heart
44	chr10:28407600-28413200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr10:28407600-28414200	Strong transcription	Primary T cells from cord blood	blood
46	chr10:28407600-28418800	Weak transcription	Rectal Mucosa Donor 31	rectum
47	chr10:28407800-28409400	Enhancers	HSMM	muscle
48	chr10:28407800-28409600	Enhancers	Muscle Satellite Cultured Cells	--
49	chr10:28407800-28410000	Enhancers	HUES64 Cell Line	embryonic stem cell
50	chr10:28407800-28411000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood

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