Variant report

Variant	rs10763644
Chromosome Location	chr10:28409054-28409055
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	chr10:28406473..28409563-chr10:28410652..28413187,3	MCF-7	breast:

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10047289	0.84[TSI][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10453982	0.88[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10763639	0.84[ASN][1000 genomes]
rs10763640	0.84[ASN][1000 genomes]
rs10763642	0.81[ASW][hapmap];0.88[CEU][hapmap];0.84[TSI][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10763643	0.80[CEU][hapmap];0.85[GIH][hapmap];0.88[TSI][hapmap];0.82[EUR][1000 genomes]
rs10826395	0.84[ASN][1000 genomes]
rs10826397	0.88[CEU][hapmap]
rs10826398	0.88[CEU][hapmap]
rs10826399	0.84[EUR][1000 genomes]
rs10826400	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10826401	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10826402	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006821	0.89[CEU][hapmap]
rs11006822	0.89[CEU][hapmap]
rs11006830	0.89[CEU][hapmap]
rs11006847	0.84[ASN][1000 genomes]
rs11006851	0.85[GIH][hapmap];0.81[TSI][hapmap]
rs11006852	0.89[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11006854	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11006861	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11006868	0.85[JPT][hapmap]
rs11006869	0.88[CEU][hapmap]
rs11006877	0.88[CEU][hapmap]
rs11006883	0.82[CEU][hapmap]
rs12253376	0.89[CEU][hapmap]
rs12414756	0.82[JPT][hapmap]
rs1574418	0.89[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1892394	0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1951936	0.82[EUR][1000 genomes]
rs3802520	0.89[CEU][hapmap]
rs3885634	0.89[CEU][hapmap]
rs4333922	0.88[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs4336934	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4749301	0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs4749305	0.80[CEU][hapmap];0.85[GIH][hapmap];0.88[TSI][hapmap];0.84[EUR][1000 genomes]
rs6481499	0.89[CEU][hapmap]
rs7083490	0.86[JPT][hapmap]
rs7085159	0.84[EUR][1000 genomes]
rs7091158	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7474568	1.00[CHD][hapmap];0.84[ASN][1000 genomes]
rs7478224	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7478236	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7478252	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7478268	0.82[ASN][1000 genomes]
rs7895209	0.84[EUR][1000 genomes]
rs7895285	0.88[CEU][hapmap]
rs7896041	0.84[EUR][1000 genomes]
rs7898270	0.88[CEU][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7898482	0.88[CEU][hapmap];0.84[TSI][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7903192	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7916852	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.96[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7919895	0.83[GIH][hapmap]
rs7920296	0.86[JPT][hapmap]
rs7920402	0.85[JPT][hapmap]
rs7923978	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[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:64 , 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	chr10:28379200-28416600	Weak transcription	Fetal Intestine Small	intestine
11	chr10:28389600-28416400	Weak transcription	Primary hematopoietic stem cells	blood
12	chr10:28392200-28417000	Weak transcription	Esophagus	oesophagus
13	chr10:28392400-28416800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr10:28396200-28414400	Weak transcription	Adipose Nuclei	Adipose
15	chr10:28396400-28422400	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr10:28396800-28416600	Weak transcription	Aorta	Aorta
17	chr10:28398000-28417200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr10:28401800-28414800	Strong transcription	Monocytes-CD14+_RO01746	blood
19	chr10:28403400-28414800	Strong transcription	Primary monocytes fromperipheralblood	blood
20	chr10:28403600-28443200	Weak transcription	Stomach Smooth Muscle	stomach
21	chr10:28404800-28416800	Weak transcription	Fetal Stomach	stomach
22	chr10:28406200-28409200	Weak transcription	HepG2	liver
23	chr10:28406600-28413400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr10:28406600-28421600	Weak transcription	Primary B cells from cord blood	blood
25	chr10:28407000-28413400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
26	chr10:28407200-28409800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr10:28407400-28410200	Enhancers	Hela-S3	cervix
28	chr10:28407400-28411000	Enhancers	Breast Myoepithelial Primary Cells	Breast
29	chr10:28407400-28413400	Strong transcription	Primary T helper cells PMA-I stimulated	--
30	chr10:28407400-28414200	Strong transcription	Primary T cells fromperipheralblood	blood
31	chr10:28407400-28414400	Strong transcription	Primary neutrophils fromperipheralblood	blood
32	chr10:28407600-28409200	Enhancers	HSMMtube	muscle
33	chr10:28407600-28409800	Enhancers	ES-I3 Cell Line	embryonic stem cell
34	chr10:28407600-28410000	Weak transcription	Right Ventricle	heart
35	chr10:28407600-28413200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr10:28407600-28414200	Strong transcription	Primary T cells from cord blood	blood
37	chr10:28407600-28418800	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr10:28407800-28409400	Enhancers	HSMM	muscle
39	chr10:28407800-28409600	Enhancers	Muscle Satellite Cultured Cells	--
40	chr10:28407800-28410000	Enhancers	HUES64 Cell Line	embryonic stem cell
41	chr10:28407800-28411000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
42	chr10:28407800-28413600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr10:28407800-28414200	Strong transcription	Primary T helper cells fromperipheralblood	blood
44	chr10:28408000-28409400	Enhancers	HUVEC	blood vessel
45	chr10:28408200-28415000	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr10:28408400-28409200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr10:28408400-28409200	Enhancers	Psoas Muscle	Psoas
48	chr10:28408400-28409600	Enhancers	HMEC	breast
49	chr10:28408400-28409800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr10:28408400-28409800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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