Variant report

Variant	rs12554363
Chromosome Location	chr9:100118621-100118622
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:100116722..100121269-chr9:100122839..100125546,6	K562	blood:
2	chr9:100108364..100110444-chr9:100117430..100119341,2	MCF-7	breast:
3	chr9:100115057..100118663-chr9:100121927..100124718,3	K562	blood:

Variant related genes	Relation type
ENSG00000197816	Chromatin interaction

Extended variants
information (count: 119 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:119)

rs_ID	r²[population]
rs1048451	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10521029	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs10817384	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10817491	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10817504	0.89[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10981297	0.94[CEU][hapmap];0.88[YRI][hapmap]
rs10981367	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs10981434	0.82[EUR][1000 genomes]
rs10981444	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10981460	0.94[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10981688	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10981701	0.92[AMR][1000 genomes]
rs10981784	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10981800	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10981801	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1123379	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11581	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs12115447	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12115448	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12377538	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12378350	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12550923	0.94[CEU][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12551740	0.94[CEU][hapmap];0.94[YRI][hapmap];0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12551818	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12552101	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12552659	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12553155	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12553213	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12553259	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12555277	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13285567	0.93[CEU][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13286510	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13287082	0.94[CEU][hapmap];1.00[YRI][hapmap]
rs13289134	0.94[CEU][hapmap];1.00[YRI][hapmap]
rs13289813	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13292715	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13300328	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13301045	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13301965	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1531440	0.94[CEU][hapmap];0.94[YRI][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1564048	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1564050	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16919506	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16919656	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs16919661	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16919671	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16919675	0.95[CEU][hapmap];0.86[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1986462	0.89[CEU][hapmap]
rs2045729	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2045730	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2045731	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2279113	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2290933	1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2306090	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2306092	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2306094	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2401384	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34135027	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34183765	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34355647	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34476799	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34564795	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34609282	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34616426	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34754033	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34870571	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34905303	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34954690	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35066943	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35123877	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs35534888	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35623544	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35737497	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35778461	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35778718	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35788892	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3747490	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3747491	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3747492	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3747495	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3747498	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3747499	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3747504	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3747506	0.94[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3747507	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3747510	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3747511	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3827484	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3827485	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3994560	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4128763	1.00[CEU][hapmap]
rs41316960	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4742686	0.95[CHB][hapmap];0.89[JPT][hapmap];0.83[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4742688	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4743069	0.85[EUR][1000 genomes]
rs4743070	0.94[CEU][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4743073	1.00[CEU][hapmap];0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4743082	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743083	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743085	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4743086	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60681062	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62557460	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62557461	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62557462	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62557463	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62559861	0.83[EUR][1000 genomes]
rs6478038	0.84[EUR][1000 genomes]
rs6478039	0.84[EUR][1000 genomes]
rs7020530	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7038496	0.94[CEU][hapmap];0.94[YRI][hapmap];0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7041222	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73565808	0.90[EUR][1000 genomes]
rs7859665	0.82[JPT][hapmap]
rs7872669	0.85[EUR][1000 genomes]
rs7874652	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs898869	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs898870	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9696058	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100070000-100131400	Weak transcription	Fetal Kidney	kidney
2	chr9:100077000-100140800	Weak transcription	Fetal Brain Male	brain
3	chr9:100080400-100126400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr9:100083800-100124000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr9:100086600-100121600	Weak transcription	Right Ventricle	heart
6	chr9:100086600-100132000	Weak transcription	Thymus	Thymus
7	chr9:100088000-100126200	Weak transcription	Primary B cells from peripheral blood	blood
8	chr9:100088200-100127000	Weak transcription	Duodenum Mucosa	Duodenum
9	chr9:100088600-100128600	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr9:100088600-100132800	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr9:100088800-100121400	Weak transcription	Gastric	stomach
12	chr9:100089200-100128200	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr9:100090600-100119000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr9:100090600-100133800	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr9:100091600-100149200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr9:100093600-100122400	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr9:100099000-100132200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr9:100104400-100118800	Weak transcription	Spleen	Spleen
19	chr9:100104400-100142000	Weak transcription	Rectal Smooth Muscle	rectum
20	chr9:100104600-100128200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr9:100105200-100120800	Weak transcription	Psoas Muscle	Psoas
22	chr9:100105400-100127600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
23	chr9:100105800-100128000	Weak transcription	Brain Substantia Nigra	brain
24	chr9:100106800-100128000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr9:100106800-100143200	Weak transcription	Liver	Liver
26	chr9:100107000-100131400	Weak transcription	Primary hematopoietic stem cells	blood
27	chr9:100107200-100130200	Weak transcription	Fetal Lung	lung
28	chr9:100107200-100138400	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr9:100108000-100148200	Weak transcription	Esophagus	oesophagus
30	chr9:100110200-100132200	Weak transcription	Primary T cells fromperipheralblood	blood
31	chr9:100110800-100121600	Weak transcription	Brain Germinal Matrix	brain
32	chr9:100112200-100124600	Weak transcription	Lung	lung
33	chr9:100113000-100123600	Weak transcription	Fetal Brain Female	brain
34	chr9:100114600-100119000	Weak transcription	Primary B cells from cord blood	blood
35	chr9:100114600-100124200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr9:100114800-100122200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr9:100115400-100144600	Weak transcription	Hela-S3	cervix
38	chr9:100115600-100139200	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr9:100115800-100125400	Weak transcription	Dnd41	blood
40	chr9:100116000-100127600	Weak transcription	HUES6 Cell Line	embryonic stem cell
41	chr9:100116200-100130800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr9:100116400-100130800	Strong transcription	Fetal Stomach	stomach
43	chr9:100116600-100129200	Strong transcription	Stomach Smooth Muscle	stomach
44	chr9:100116800-100118800	Strong transcription	Brain Hippocampus Middle	brain
45	chr9:100116800-100123000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr9:100116800-100126000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr9:100117000-100119000	Strong transcription	Brain Cingulate Gyrus	brain
48	chr9:100117000-100119400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr9:100117000-100120000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr9:100117000-100120400	Strong transcription	Aorta	Aorta

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