Variant report

Variant	rs11078404
Chromosome Location	chr17:17820487-17820488
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:17817435..17819884-chr17:17820293..17824175,3	MCF-7	breast:
2	chr17:17820370..17822488-chr17:17946052..17948620,2	K562	blood:

Extended variants
information (count: 111 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:104)

rs_ID	r²[population]
rs10048206	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11078400	0.82[EUR][1000 genomes]
rs11078403	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11078405	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11078406	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11078407	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11078408	0.82[EUR][1000 genomes]
rs11650649	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11650890	0.90[EUR][1000 genomes]
rs11656840	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11657074	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11657773	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11657845	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11658309	0.82[AMR][1000 genomes]
rs11869536	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11870660	0.81[EUR][1000 genomes]
rs11871899	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12452219	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12452254	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12600546	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12603148	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12936037	0.80[EUR][1000 genomes]
rs2350977	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28428991	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35451946	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4077198	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4077828	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4244602	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4257260	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4299203	0.81[EUR][1000 genomes]
rs4321247	0.88[EUR][1000 genomes]
rs4341796	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4343339	0.96[EUR][1000 genomes]
rs4413022	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4414547	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4470201	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4471742	0.82[EUR][1000 genomes]
rs4534911	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4553680	0.95[EUR][1000 genomes]
rs4616340	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4924823	0.81[EUR][1000 genomes]
rs4925123	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4925125	0.93[EUR][1000 genomes]
rs4925126	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4925129	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4925130	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs5002487	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs57728924	0.81[EUR][1000 genomes]
rs62064156	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62064158	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62072049	0.82[EUR][1000 genomes]
rs6502619	0.90[EUR][1000 genomes]
rs6502622	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6502624	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6502625	0.88[EUR][1000 genomes]
rs6502626	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6502627	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6502629	0.82[EUR][1000 genomes]
rs66531105	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67253360	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7207043	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7207395	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7208190	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7213225	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7214002	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7214536	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7219320	0.81[EUR][1000 genomes]
rs7222480	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7224815	0.83[EUR][1000 genomes]
rs7503334	0.90[EUR][1000 genomes]
rs8065416	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8065563	0.90[EUR][1000 genomes]
rs8065970	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8066982	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8068175	0.81[EUR][1000 genomes]
rs8068820	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8070128	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8070722	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8070748	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8073001	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8075965	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs8076747	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8077338	0.81[EUR][1000 genomes]
rs8077530	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs8078105	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8078138	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8078583	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8079321	0.81[EUR][1000 genomes]
rs8080061	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs8080823	0.95[EUR][1000 genomes]
rs950966	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9635697	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9635698	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9890341	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9904163	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9905284	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9907246	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9907287	0.82[EUR][1000 genomes]
rs9908017	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9908299	0.81[AMR][1000 genomes]
rs9908832	0.95[EUR][1000 genomes]
rs9912895	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9913724	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9914127	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1065270	chr17:17430116-17823086	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	91 gene(s)	inside rSNPs	diseases
2	nsv543236	chr17:17430116-17823086	Bivalent Enhancer Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	91 gene(s)	inside rSNPs	diseases
3	nsv531183	chr17:17571035-18205309	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	123 gene(s)	inside rSNPs	diseases
4	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
5	nsv907766	chr17:17682484-17957348	Enhancers Strong transcription Flanking Active TSS Genic enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
6	nsv533142	chr17:17691726-18236686	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Transcr. at gene 5' and 3' 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	116 gene(s)	inside rSNPs	diseases
7	nsv482879	chr17:17802463-17989273	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:17797600-17822400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr17:17802600-17822400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr17:17810600-17822800	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr17:17810800-17838400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
5	chr17:17811400-17838400	Weak transcription	Primary T cells from cord blood	blood
6	chr17:17814800-17822400	Weak transcription	Fetal Brain Male	brain
7	chr17:17814800-17833200	Weak transcription	Aorta	Aorta
8	chr17:17815000-17822400	Weak transcription	Liver	Liver
9	chr17:17817600-17831600	Weak transcription	Fetal Brain Female	brain
10	chr17:17817800-17821800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr17:17817800-17822200	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr17:17817800-17822400	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr17:17817800-17822400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr17:17817800-17822400	Weak transcription	GM12878-XiMat	blood
15	chr17:17817800-17823000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr17:17817800-17824400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr17:17817800-17824400	Weak transcription	Ovary	ovary
18	chr17:17817800-17838200	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr17:17818000-17821600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr17:17818000-17821800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr17:17818000-17821800	Weak transcription	Fetal Heart	heart
22	chr17:17818000-17821800	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr17:17818000-17822000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr17:17818000-17822000	Weak transcription	Left Ventricle	heart
25	chr17:17818000-17822000	Weak transcription	K562	blood
26	chr17:17818000-17822200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr17:17818000-17822200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr17:17818000-17822200	Weak transcription	Primary hematopoietic stem cells	blood
29	chr17:17818000-17822200	Weak transcription	Primary T helper cells PMA-I stimulated	--
30	chr17:17818000-17822200	Weak transcription	Duodenum Mucosa	Duodenum
31	chr17:17818000-17822200	Weak transcription	Fetal Muscle Trunk	muscle
32	chr17:17818000-17822200	Weak transcription	Fetal Stomach	stomach
33	chr17:17818000-17822200	Weak transcription	Right Atrium	heart
34	chr17:17818000-17822200	Weak transcription	Stomach Smooth Muscle	stomach
35	chr17:17818000-17822200	Weak transcription	HepG2	liver
36	chr17:17818000-17822400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
37	chr17:17818000-17822400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr17:17818000-17822400	Weak transcription	Colonic Mucosa	Colon
39	chr17:17818000-17822400	Weak transcription	Psoas Muscle	Psoas
40	chr17:17818000-17822400	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr17:17818000-17822400	Weak transcription	Stomach Mucosa	stomach
42	chr17:17818000-17822400	Weak transcription	Dnd41	blood
43	chr17:17818000-17822400	Weak transcription	HUVEC	blood vessel
44	chr17:17818000-17822400	Weak transcription	NH-A	brain
45	chr17:17818000-17822400	Weak transcription	Osteobl	bone
46	chr17:17818000-17822800	Weak transcription	Primary monocytes fromperipheralblood	blood
47	chr17:17818000-17822800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr17:17818000-17823000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr17:17818000-17823200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
50	chr17:17818000-17824400	Weak transcription	Fetal Kidney	kidney

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