Variant report

Variant	rs11028773
Chromosome Location	chr11:25599986-25599987
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10444265	0.89[EUR][1000 genomes]
rs10501012	0.92[EUR][1000 genomes]
rs10501013	0.92[EUR][1000 genomes]
rs10767409	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10834700	0.83[EUR][1000 genomes]
rs10834708	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10834723	0.94[CEU][hapmap];0.85[CHB][hapmap];0.83[GIH][hapmap];0.91[JPT][hapmap]
rs10834724	0.89[CEU][hapmap];0.92[CHB][hapmap];0.90[JPT][hapmap]
rs10834725	0.89[CEU][hapmap];0.85[CHB][hapmap];0.87[GIH][hapmap];0.91[JPT][hapmap]
rs10834726	0.89[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap]
rs11028753	0.89[EUR][1000 genomes]
rs11028754	0.93[EUR][1000 genomes]
rs11028757	0.92[EUR][1000 genomes]
rs11028772	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11028776	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11028777	1.00[EUR][1000 genomes]
rs11028779	0.90[EUR][1000 genomes]
rs11028782	0.84[EUR][1000 genomes]
rs11028787	0.84[EUR][1000 genomes]
rs11604152	0.85[EUR][1000 genomes]
rs1373019	0.81[ASN][1000 genomes]
rs1443146	0.82[ASN][1000 genomes]
rs1443148	0.82[ASN][1000 genomes]
rs17242335	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34012390	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34684672	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34875653	0.92[EUR][1000 genomes]
rs3852509	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:21 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049709	chr11:25150091-25605844	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv467763	chr11:25172085-25600742	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv553860	chr11:25172085-25600742	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv2760599	chr11:25186984-26159450	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1043467	chr11:25210613-25691086	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv540971	chr11:25210613-25691086	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv897128	chr11:25294229-25656452	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv1046507	chr11:25469712-26111707	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	esv2757431	chr11:25564190-25638712	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	esv2759811	chr11:25564190-25842666	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv437708	chr11:25569848-25630858	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv897131	chr11:25569848-25720291	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	nsv897132	chr11:25582331-25753192	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
14	nsv1041080	chr11:25585107-25931087	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
15	nsv553872	chr11:25586656-25625889	Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
16	nsv1052448	chr11:25592509-25751220	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
17	nsv540972	chr11:25592509-25751220	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
18	nsv1039190	chr11:25592509-25925352	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
19	nsv540973	chr11:25592509-25925352	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
20	nsv897133	chr11:25592935-25645867	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
21	nsv897134	chr11:25592935-25674033	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11028773	SLC5A12	cis	parietal	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:25596600-25600000	Enhancers	NHEK	skin
2	chr11:25598000-25603000	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr11:25598200-25600600	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr11:25598800-25600800	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr11:25598800-25600800	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr11:25598800-25601200	Enhancers	iPS-15b Cell Line	embryonic stem cell
7	chr11:25599200-25600600	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr11:25599400-25601800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr11:25599600-25601800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr11:25599600-25608600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr11:25599800-25600200	Weak transcription	HUES6 Cell Line	embryonic stem cell

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