Variant report

Variant	rs1907899
Chromosome Location	chr10:58346918-58346919
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	chr10:58346871..58349130-chr10:58356428..58359069,2	MCF-7	breast:

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10509050	0.88[CHB][hapmap];0.94[JPT][hapmap];0.90[YRI][hapmap];0.91[ASN][1000 genomes]
rs10509051	0.88[CHB][hapmap];0.94[JPT][hapmap];0.90[YRI][hapmap];0.91[ASN][1000 genomes]
rs11816015	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11817010	0.90[ASN][1000 genomes]
rs11818102	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11819250	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12098738	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16909062	0.91[ASN][1000 genomes]
rs16909068	0.87[CHB][hapmap];0.94[JPT][hapmap];0.89[YRI][hapmap];0.91[ASN][1000 genomes]
rs16909088	0.85[CHB][hapmap];0.93[JPT][hapmap];0.88[YRI][hapmap];0.91[ASN][1000 genomes]
rs16909098	0.87[CHB][hapmap];0.94[JPT][hapmap];0.89[YRI][hapmap];0.91[ASN][1000 genomes]
rs2131392	0.90[ASN][1000 genomes]
rs4117183	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4117184	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4117185	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4390276	0.87[ASN][1000 genomes]
rs4545462	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55868141	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55959906	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56278682	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56351613	0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57139805	0.91[ASN][1000 genomes]
rs57668159	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59304142	0.80[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs59471343	0.94[ASN][1000 genomes]
rs7068672	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72803002	0.90[ASN][1000 genomes]
rs72804915	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72804959	0.82[EUR][1000 genomes]
rs72804960	0.82[EUR][1000 genomes]
rs72804961	0.82[EUR][1000 genomes]
rs72804963	0.82[EUR][1000 genomes]
rs72804964	0.82[EUR][1000 genomes]
rs72804966	0.82[EUR][1000 genomes]
rs72804968	0.82[EUR][1000 genomes]
rs72804969	0.82[EUR][1000 genomes]
rs72804970	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72804973	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72804975	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72804977	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72804978	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72804979	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72804981	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72804982	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72804983	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72804984	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72804988	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72804989	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72804990	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs74137866	0.91[ASN][1000 genomes]
rs74137867	0.90[ASN][1000 genomes]
rs74137869	0.91[ASN][1000 genomes]
rs74137871	0.91[ASN][1000 genomes]
rs74137872	0.91[ASN][1000 genomes]
rs74137874	0.91[ASN][1000 genomes]
rs74137875	0.91[ASN][1000 genomes]
rs74137876	0.91[ASN][1000 genomes]
rs74137877	0.91[ASN][1000 genomes]
rs74137879	0.91[ASN][1000 genomes]
rs74137881	0.91[ASN][1000 genomes]
rs74137884	0.91[ASN][1000 genomes]
rs74138706	0.94[ASN][1000 genomes]
rs7909712	0.83[EUR][1000 genomes]
rs7919359	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7920235	0.82[EUR][1000 genomes]
rs7922372	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:22 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2752691	chr10:57738694-58541894	Enhancers Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1041942	chr10:58290439-58451787	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv540647	chr10:58290439-58451787	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv517747	chr10:58296224-58473735	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv1037949	chr10:58300798-58354925	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv1036583	chr10:58326465-58482756	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv1037820	chr10:58328507-58480790	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv1045583	chr10:58328507-58482756	Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Weak transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
9	nsv1054652	chr10:58328507-58485001	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	esv2760127	chr10:58328519-58485013	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	nsv551063	chr10:58329209-58473735	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
12	nsv1037340	chr10:58329209-58480790	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
13	nsv1054588	chr10:58329209-58482756	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
14	nsv1054062	chr10:58329209-58485001	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
15	nsv1043534	chr10:58330520-58480790	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
16	nsv1047489	chr10:58330520-58482756	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
17	nsv1045015	chr10:58334902-58482756	Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Weak transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
18	nsv1047726	chr10:58334902-58485001	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
19	nsv1048186	chr10:58343941-58475146	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
20	nsv540648	chr10:58343941-58475146	Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
21	nsv1039709	chr10:58343941-58522183	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
22	nsv540649	chr10:58343941-58522183	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:58345400-58347200	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr10:58345600-58347200	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr10:58346000-58347000	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr10:58346000-58347400	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr10:58346400-58347600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr10:58346400-58354000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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