Variant report

Variant	rs4925180
Chromosome Location	chr17:18253058-18253059
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:18251618..18253842-chr17:18265365..18267781,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000176974	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs11540888	1.00[ASN][1000 genomes]
rs11870681	1.00[ASN][1000 genomes]
rs16961058	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16961112	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2125154	1.00[CEU][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28671051	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4924848	1.00[CEU][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4925170	1.00[CEU][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4925173	1.00[CEU][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4925174	1.00[CEU][hapmap];0.84[YRI][hapmap]
rs4925175	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55973639	1.00[ASN][1000 genomes]
rs61753153	1.00[ASN][1000 genomes]
rs6502648	1.00[CEU][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7215491	1.00[CEU][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7222589	1.00[ASN][1000 genomes]
rs73980813	1.00[ASN][1000 genomes]
rs73980819	1.00[ASN][1000 genomes]
rs73980849	1.00[ASN][1000 genomes]
rs73980856	1.00[ASN][1000 genomes]
rs73980857	1.00[ASN][1000 genomes]
rs8074858	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8080285	1.00[CEU][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8082574	1.00[ASN][1000 genomes]
rs9893254	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9894005	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9894616	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9897954	1.00[CEU][hapmap];0.84[YRI][hapmap]
rs9898548	0.84[YRI][hapmap]
rs9902011	1.00[CEU][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9902498	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9903235	0.89[AMR][1000 genomes]
rs9903762	0.85[YRI][hapmap];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9904323	1.00[CEU][hapmap]
rs9913916	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9915858	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916653	chr17:17651916-18454952	Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
2	nsv1061162	chr17:17978838-18259234	Flanking Active TSS Weak transcription Genic enhancers Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv492305	chr17:17980441-18424702	Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
4	nsv833386	chr17:18170261-18332726	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
5	nsv1057081	chr17:18171516-18256347	Active TSS Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
6	nsv543247	chr17:18171516-18256347	Weak transcription Active TSS Genic enhancers Strong transcription Enhancers Flanking Active TSS 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	15 gene(s)	inside rSNPs	diseases
7	nsv1062368	chr17:18180747-18259234	Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
8	nsv833387	chr17:18200081-18378155	Active TSS Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
9	esv1806346	chr17:18200081-18446384	Active TSS Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
10	esv1812661	chr17:18200081-18446384	Genic enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
11	nsv428333	chr17:18200081-18446384	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
12	nsv427992	chr17:18200081-19192047	Strong transcription Genic enhancers Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	100 gene(s)	inside rSNPs	diseases
13	esv2758443	chr17:18234525-18446384	Weak transcription Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	30 gene(s)	inside rSNPs	diseases
14	esv2758677	chr17:18234525-18446384	Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	30 gene(s)	inside rSNPs	diseases
15	esv1829832	chr17:18235992-18405148	Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
16	nsv978377	chr17:18251618-18265255	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Enhancers Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:18219400-18266000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr17:18222400-18266200	Weak transcription	Small Intestine	intestine
3	chr17:18223600-18265400	Strong transcription	Fetal Stomach	stomach
4	chr17:18223800-18253600	Strong transcription	Thymus	Thymus
5	chr17:18228200-18265800	Weak transcription	Fetal Brain Male	brain
6	chr17:18228600-18266000	Weak transcription	HSMM	muscle
7	chr17:18229000-18266000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr17:18230000-18260000	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr17:18230200-18260200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr17:18230200-18265600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr17:18231000-18266000	Weak transcription	Psoas Muscle	Psoas
12	chr17:18231200-18260600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr17:18235400-18256600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr17:18235800-18265400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr17:18237600-18260200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr17:18242200-18260400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr17:18242400-18258200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
18	chr17:18242400-18259600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr17:18242400-18264000	Strong transcription	Fetal Thymus	thymus
20	chr17:18242600-18258200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
21	chr17:18242600-18260400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
22	chr17:18242800-18257000	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr17:18243600-18260400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr17:18243800-18264200	Strong transcription	HUES64 Cell Line	embryonic stem cell
25	chr17:18244000-18256200	Weak transcription	Colon Smooth Muscle	Colon
26	chr17:18244000-18263800	Strong transcription	HUES48 Cell Line	embryonic stem cell
27	chr17:18244200-18259800	Strong transcription	H1 Cell Line	embryonic stem cell
28	chr17:18244200-18263800	Strong transcription	Fetal Intestine Small	intestine
29	chr17:18244400-18255200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr17:18244400-18264200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr17:18244400-18264200	Strong transcription	HUES6 Cell Line	embryonic stem cell
32	chr17:18244400-18266200	Weak transcription	Stomach Mucosa	stomach
33	chr17:18244600-18258000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
34	chr17:18245400-18266000	Weak transcription	NH-A	brain
35	chr17:18247000-18254200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr17:18247000-18258000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr17:18247000-18258200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr17:18247200-18257200	Strong transcription	Dnd41	blood
39	chr17:18247200-18260400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr17:18247400-18258000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr17:18247400-18258000	Strong transcription	Fetal Muscle Leg	muscle
42	chr17:18247600-18258400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr17:18248200-18254000	Strong transcription	Skeletal Muscle Female	skeletal muscle
44	chr17:18248400-18254200	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr17:18248400-18257400	Strong transcription	Primary T cells fromperipheralblood	blood
46	chr17:18250200-18256200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr17:18250200-18256800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr17:18250200-18265200	Weak transcription	Fetal Kidney	kidney
49	chr17:18250200-18265200	Weak transcription	K562	blood
50	chr17:18250200-18265400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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