Variant report

Variant	rs1535559
Chromosome Location	chr10:112640711-112640712
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:112630933..112635987-chr10:112638238..112642004,12	MCF-7	breast:

Variant related genes	Relation type
ENSG00000203497	Chromatin interaction
ENSG00000150593	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs11195368	1.00[CEU][hapmap];0.93[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11195373	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11195376	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11195409	0.84[EUR][1000 genomes]
rs11592186	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11592376	0.87[YRI][hapmap];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11593462	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11593479	0.95[EUR][1000 genomes]
rs11593592	1.00[CEU][hapmap];0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11593866	0.84[EUR][1000 genomes]
rs11597120	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs11597460	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs11597928	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11812232	0.84[EUR][1000 genomes]
rs11812855	1.00[CEU][hapmap];0.88[YRI][hapmap];0.95[EUR][1000 genomes]
rs11813262	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11813593	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11814418	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs11814686	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11816033	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs11816247	1.00[CEU][hapmap];0.93[YRI][hapmap];0.95[EUR][1000 genomes]
rs11816269	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs11816396	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11818060	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs11818747	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs11818761	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11818771	1.00[CEU][hapmap];0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11818869	0.93[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12781566	1.00[ASN][1000 genomes]
rs1322997	0.97[EUR][1000 genomes]
rs1327556	1.00[CEU][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17128189	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs1885796	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34104444	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55647014	1.00[EUR][1000 genomes]
rs55858908	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56237211	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60633872	0.95[EUR][1000 genomes]
rs60681723	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60877808	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61469604	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6585018	0.97[EUR][1000 genomes]
rs6585020	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs7081726	0.95[EUR][1000 genomes]
rs74156303	1.00[ASN][1000 genomes]
rs74156304	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs74156305	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156307	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156308	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156309	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156310	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156311	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156320	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs74156323	0.95[EUR][1000 genomes]
rs7923004	1.00[CEU][hapmap];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045608	chr10:112524813-112677557	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1041758	chr10:112552897-112677557	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv1051566	chr10:112580049-112730573	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	nsv1035602	chr10:112636053-112781413	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:112632800-112643800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr10:112632800-112643800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr10:112632800-112678000	Weak transcription	Lung	lung
4	chr10:112632800-112678200	Weak transcription	Spleen	Spleen
5	chr10:112633200-112643800	Weak transcription	Esophagus	oesophagus
6	chr10:112633200-112643800	Weak transcription	Left Ventricle	heart
7	chr10:112633200-112656000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr10:112633200-112656800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr10:112633400-112662000	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr10:112633600-112641000	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr10:112633600-112641200	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr10:112633600-112641200	Weak transcription	Brain Angular Gyrus	brain
13	chr10:112633600-112653800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr10:112633600-112655200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr10:112633800-112643800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr10:112633800-112659800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr10:112634000-112640800	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr10:112634000-112641000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr10:112634000-112641000	Weak transcription	Aorta	Aorta
20	chr10:112634000-112641000	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr10:112634000-112643400	Weak transcription	Fetal Muscle Leg	muscle
22	chr10:112634000-112643800	Weak transcription	Thymus	Thymus
23	chr10:112634000-112647000	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr10:112634000-112649400	Weak transcription	Brain Hippocampus Middle	brain
25	chr10:112634000-112655000	Weak transcription	Brain Cingulate Gyrus	brain
26	chr10:112634000-112655800	Weak transcription	Psoas Muscle	Psoas
27	chr10:112634000-112656000	Weak transcription	Right Ventricle	heart
28	chr10:112634000-112662400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr10:112634200-112643600	Weak transcription	Brain Germinal Matrix	brain
30	chr10:112634200-112643600	Weak transcription	Right Atrium	heart
31	chr10:112634200-112646600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr10:112634200-112655800	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr10:112634400-112643200	Weak transcription	Stomach Smooth Muscle	stomach
34	chr10:112634400-112643400	Weak transcription	NHLF	lung
35	chr10:112634600-112643400	Weak transcription	A549	lung
36	chr10:112634600-112656600	Weak transcription	NHEK	skin
37	chr10:112634800-112641000	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr10:112634800-112641000	Weak transcription	HSMMtube	muscle
39	chr10:112634800-112643400	Weak transcription	K562	blood
40	chr10:112634800-112643800	Weak transcription	Fetal Stomach	stomach
41	chr10:112634800-112646000	Weak transcription	Fetal Brain Male	brain
42	chr10:112634800-112661800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr10:112634800-112677400	Weak transcription	HUVEC	blood vessel
44	chr10:112635400-112657000	Strong transcription	HSMM	muscle
45	chr10:112635400-112661800	Strong transcription	Placenta	Placenta
46	chr10:112635600-112660600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr10:112635600-112662200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr10:112635600-112663400	Strong transcription	Primary monocytes fromperipheralblood	blood
49	chr10:112635800-112641800	Genic enhancers	Rectal Mucosa Donor 31	rectum
50	chr10:112635800-112647800	Genic enhancers	Primary T helper cells fromperipheralblood	blood

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