Variant report

Variant	rs10206428
Chromosome Location	chr2:113826475-113826476
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	NR2F2	chr2:113826368-113827118	MCF-7	breast:	n/a	n/a
2	GATA3	chr2:113826158-113827354	MCF-7	breast:	n/a	chr2:113826737-113826747 chr2:113826732-113826753 chr2:113826738-113826746 chr2:113826734-113826750 chr2:113826739-113826746 chr2:113827011-113827028 chr2:113826739-113826746 chr2:113826739-113826746 chr2:113827146-113827163
3	NR2F2	chr2:113826362-113827195	MCF-7	breast:	n/a	n/a
4	GATA3	chr2:113826391-113827174	MCF-7	breast:	n/a	chr2:113826737-113826747 chr2:113826732-113826753 chr2:113826738-113826746 chr2:113826734-113826750 chr2:113826739-113826746 chr2:113827011-113827028 chr2:113826739-113826746 chr2:113826739-113826746 chr2:113827146-113827163
5	SIN3AK20	chr2:113826368-113827148	MCF-7	breast:	n/a	n/a
6	TCF7L2	chr2:113826385-113826726	PANC-1	pancreas:	n/a	n/a
7	JUND	chr2:113826345-113827149	MCF-7	breast:	n/a	chr2:113827032-113827043 chr2:113827035-113827045
8	FOS	chr2:113826434-113826580	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr2:113825741..113828601-chr2:113834628..113836423,2	MCF-7	breast:
2	chr2:113826166..113827834-chr2:113829745..113831406,2	K562	blood:
3	chr2:113819855..113821776-chr2:113826453..113828275,2	MCF-7	breast:

Variant related genes	Relation type
IL1F10	TF binding region
ENSG00000136697	Chromatin interaction
ENSG00000136695	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10165797	0.80[CEU][hapmap];0.95[CHB][hapmap]
rs11123158	0.95[CHB][hapmap];0.85[JPT][hapmap];0.85[ASN][1000 genomes]
rs12475161	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13407508	0.90[CHB][hapmap]
rs1374285	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1374286	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1530548	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1530550	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1530551	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1530552	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1530553	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1800930	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2251872	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2251876	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2252007	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2305150	0.90[CHB][hapmap]
rs2441375	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2441376	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2472187	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2472188	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2515391	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2515392	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2515394	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2515395	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2515396	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2515397	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2515398	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2515399	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2515401	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2515402	0.92[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2515403	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2862772	0.90[CHB][hapmap]
rs3180234	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3180235	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4849146	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4849150	0.85[ASN][1000 genomes]
rs6733859	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6748448	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6758965	0.90[CHB][hapmap]
rs768627	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs921065	0.82[CHB][hapmap]
rs957201	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532471	chr2:113682449-113862981	ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv997348	chr2:113688093-113986508	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1007254	chr2:113726982-113887782	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv535894	chr2:113726982-113887782	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
5	nsv2881	chr2:113800805-113846597	Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:113820600-113826600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr2:113824400-113826600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr2:113825000-113826600	Enhancers	Placenta	Placenta
4	chr2:113825200-113827800	Enhancers	Fetal Intestine Large	intestine
5	chr2:113825200-113828200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr2:113825200-113828200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr2:113825400-113833000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr2:113825600-113826800	Enhancers	Fetal Intestine Small	intestine
9	chr2:113825800-113832800	Enhancers	NHEK	skin
10	chr2:113825800-113839600	Enhancers	HMEC	breast
11	chr2:113826000-113827200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr2:113826200-113833200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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