Variant report

Variant	rs28730549
Chromosome Location	chr14:64962295-64962296
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	chr14:64956356..64961441-chr14:64961898..64964971,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000089775	Chromatin interaction

Extended variants
information (count: 101 )
Associated
traits (count: 9 )

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs10131155	0.85[ASN][1000 genomes]
rs10131416	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10132424	0.93[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs10132969	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10133243	0.83[CHB][hapmap];0.83[JPT][hapmap];0.84[ASN][1000 genomes]
rs10133411	0.93[CHB][hapmap];0.83[CHD][hapmap];0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs10133696	1.00[CHB][hapmap];0.94[CHD][hapmap];0.92[GIH][hapmap];0.83[JPT][hapmap];0.93[MEX][hapmap];0.87[TSI][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10133848	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10134530	0.92[GIH][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10136732	0.92[GIH][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10138256	0.83[ASN][1000 genomes]
rs10142835	0.90[CHB][hapmap];0.83[ASN][1000 genomes]
rs10142879	1.00[CHB][hapmap];0.94[CHD][hapmap];0.90[GIH][hapmap];0.83[JPT][hapmap];0.94[MEX][hapmap];0.89[TSI][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10143170	0.83[ASN][1000 genomes]
rs10143839	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10145001	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10145005	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10145013	0.92[GIH][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10147522	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10149286	0.83[ASN][1000 genomes]
rs10150781	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10873173	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11158542	0.90[GIH][hapmap];0.89[TSI][hapmap];0.83[EUR][1000 genomes]
rs11158543	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11158544	0.83[ASN][1000 genomes]
rs11623457	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11625265	1.00[CHB][hapmap];0.94[CHD][hapmap];0.92[GIH][hapmap];0.83[JPT][hapmap];0.87[MEX][hapmap];0.86[TSI][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11626222	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11627122	0.81[EUR][1000 genomes]
rs11627387	0.92[GIH][hapmap];0.87[TSI][hapmap];0.88[EUR][1000 genomes]
rs11628221	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11845653	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11847054	0.83[ASN][1000 genomes]
rs11848179	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11849935	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11851236	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12050238	1.00[CHB][hapmap];0.83[JPT][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12050358	1.00[CHB][hapmap];0.94[CHD][hapmap];0.92[GIH][hapmap];0.83[JPT][hapmap];0.94[MEX][hapmap];0.89[TSI][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12385910	0.93[CHB][hapmap];0.83[JPT][hapmap];0.84[ASN][1000 genomes]
rs12385918	0.93[CHB][hapmap];0.83[CHD][hapmap];0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs12586212	0.85[ASN][1000 genomes]
rs12588886	0.84[CHB][hapmap];0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs12589947	0.84[ASN][1000 genomes]
rs1453004	0.93[CHB][hapmap];0.83[CHD][hapmap];0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs1453007	0.93[CHB][hapmap];0.83[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1453009	0.93[CHB][hapmap];0.83[CHD][hapmap];0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs1470851	1.00[CHB][hapmap];0.94[CHD][hapmap];0.92[GIH][hapmap];0.83[JPT][hapmap];0.94[MEX][hapmap];0.89[TSI][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17101896	0.83[ASN][1000 genomes]
rs1966865	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1980519	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1980520	1.00[CHB][hapmap];0.94[CHD][hapmap];0.92[GIH][hapmap];0.83[JPT][hapmap];0.94[MEX][hapmap];0.89[TSI][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1982440	0.93[CHB][hapmap];0.83[CHD][hapmap];0.80[GIH][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs2045024	0.90[GIH][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2123459	0.92[GIH][hapmap];0.89[TSI][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2123460	0.92[GIH][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2198347	1.00[CHB][hapmap];0.94[CHD][hapmap];0.92[GIH][hapmap];0.83[JPT][hapmap];0.94[MEX][hapmap];0.89[TSI][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28446048	0.85[ASN][1000 genomes]
rs28469649	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28626711	0.83[ASN][1000 genomes]
rs28666045	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28738919	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28766386	0.90[GIH][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28827477	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs35115595	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35451957	0.83[ASN][1000 genomes]
rs3742606	0.90[GIH][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3742608	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3783722	0.93[CHB][hapmap];0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs3783723	0.85[ASN][1000 genomes]
rs3783724	0.93[CHB][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs3783725	0.88[EUR][1000 genomes]
rs3783727	0.93[EUR][1000 genomes]
rs4632045	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs57525201	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs58893738	0.83[ASN][1000 genomes]
rs59213791	0.82[ASN][1000 genomes]
rs59440409	0.84[ASN][1000 genomes]
rs59512674	0.83[ASN][1000 genomes]
rs59577187	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs60908674	0.84[ASN][1000 genomes]
rs61615397	0.84[ASN][1000 genomes]
rs61985663	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61985668	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61985706	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61985707	0.85[ASN][1000 genomes]
rs61985711	0.83[ASN][1000 genomes]
rs6573559	0.92[GIH][hapmap];0.81[MEX][hapmap];0.87[TSI][hapmap];0.88[EUR][1000 genomes]
rs7160131	0.86[MEX][hapmap]
rs7160634	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73265639	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73265640	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73265641	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73267743	0.85[ASN][1000 genomes]
rs73267744	0.85[ASN][1000 genomes]
rs745686	1.00[CEU][hapmap];0.95[GIH][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs8016556	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs8022537	0.88[EUR][1000 genomes]
rs8022545	0.88[EUR][1000 genomes]
rs926803	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9323451	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9323452	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]

mRNA abundance (count:9)

SNP	Gene	Cis/trans	Tissue	Source
rs28730549	ZBTB25	cis	lymphoblastoid	seeQTL
rs28730549	MTHFD1	cis	cerebellum	SCAN
rs28730549	ZBTB25	cis	parietal	SCAN
rs28730549	ZBTB25	cis	multi-tissue	Pritchard
rs28730549	ZBTB25	cis	cerebellum	SCAN
rs28730549	ZBTB1	cis	lymphoblastoid	seeQTL
rs28730549	ZBTB25	Cis_1M	lymphoblastoid	RTeQTL
rs28730549	ZBTB1	cis	cerebellum	SCAN
rs28730549	SYT16	cis	parietal	SCAN

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:64933200-64968400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr14:64933400-64968200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr14:64936800-64968400	Weak transcription	Fetal Brain Male	brain
4	chr14:64950000-64968200	Weak transcription	Colonic Mucosa	Colon
5	chr14:64950400-64963000	Strong transcription	Fetal Thymus	thymus
6	chr14:64950600-64967800	Weak transcription	HUVEC	blood vessel
7	chr14:64952200-64968000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr14:64953200-64968200	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr14:64954600-64966600	Weak transcription	HepG2	liver
10	chr14:64954600-64968000	Weak transcription	Rectal Smooth Muscle	rectum
11	chr14:64954600-64968200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr14:64954600-64968400	Weak transcription	Esophagus	oesophagus
13	chr14:64954600-64968400	Weak transcription	Gastric	stomach
14	chr14:64954600-64968400	Weak transcription	Pancreas	Pancrea
15	chr14:64954800-64966200	Weak transcription	Small Intestine	intestine
16	chr14:64954800-64966400	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr14:64954800-64966400	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr14:64954800-64968200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr14:64954800-64968200	Weak transcription	HSMMtube	muscle
20	chr14:64954800-64968400	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr14:64954800-64968400	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr14:64954800-64968400	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr14:64954800-64968400	Weak transcription	Spleen	Spleen
24	chr14:64954800-64969600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr14:64955000-64968000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr14:64955000-64968200	Weak transcription	Brain Substantia Nigra	brain
27	chr14:64955200-64963600	Weak transcription	NH-A	brain
28	chr14:64955200-64964600	Weak transcription	A549	lung
29	chr14:64955200-64967800	Weak transcription	NHDF-Ad	bronchial
30	chr14:64955200-64968000	Weak transcription	Brain Hippocampus Middle	brain
31	chr14:64955200-64968000	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr14:64955200-64968200	Weak transcription	Right Ventricle	heart
33	chr14:64955400-64966600	Weak transcription	Duodenum Mucosa	Duodenum
34	chr14:64955400-64967800	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr14:64955400-64967800	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr14:64955400-64968200	Weak transcription	Fetal Kidney	kidney
37	chr14:64955600-64968200	Weak transcription	Placenta	Placenta
38	chr14:64955600-64968200	Weak transcription	NHLF	lung
39	chr14:64955800-64968200	Weak transcription	Brain Cingulate Gyrus	brain
40	chr14:64955800-64968400	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr14:64956000-64964600	Weak transcription	Fetal Lung	lung
42	chr14:64956000-64967800	Weak transcription	Brain Germinal Matrix	brain
43	chr14:64956000-64968400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr14:64956200-64968000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr14:64956200-64968200	Weak transcription	Primary monocytes fromperipheralblood	blood
46	chr14:64956200-64968200	Weak transcription	Fetal Brain Female	brain
47	chr14:64956200-64968600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
48	chr14:64956400-64963600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr14:64956400-64968200	Weak transcription	HSMM	muscle
50	chr14:64956600-64968400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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