Variant report

Variant	rs1575460
Chromosome Location	chr9:95389770-95389771
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:95380052..95382753-chr9:95387643..95389983,2	MCF-7	breast:
2	chr9:95387821..95390648-chr9:95431903..95434432,2	MCF-7	breast:
3	chr9:95378627..95381592-chr9:95387213..95389883,2	K562	blood:
4	chr9:95385142..95387974-chr9:95389100..95391534,2	K562	blood:

Variant related genes	Relation type
ENSG00000127080	Chromatin interaction

Extended variants
information (count: 83 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10491806	1.00[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10820997	0.82[YRI][hapmap];0.85[AMR][1000 genomes]
rs10820998	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10821001	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10821003	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10821004	0.87[AMR][1000 genomes]
rs10821005	0.87[AMR][1000 genomes]
rs10821011	0.86[AMR][1000 genomes]
rs10821014	0.87[AMR][1000 genomes]
rs10992367	0.91[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10992380	0.91[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10992382	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10992384	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10992390	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10992392	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10992394	0.80[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs10992396	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10992404	0.81[AFR][1000 genomes]
rs10992406	0.94[CHB][hapmap];0.94[YRI][hapmap];0.81[AFR][1000 genomes]
rs10992407	0.86[CEU][hapmap];0.89[CHB][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10992408	0.84[CEU][hapmap];0.94[CHB][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10992409	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10992412	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10992414	0.86[CEU][hapmap];0.89[CHB][hapmap];0.87[AMR][1000 genomes]
rs10992416	0.87[AMR][1000 genomes]
rs10992417	0.87[AMR][1000 genomes]
rs10992420	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10992422	0.87[AMR][1000 genomes]
rs10992423	0.87[AMR][1000 genomes]
rs10992437	0.87[AMR][1000 genomes]
rs10992447	0.84[CEU][hapmap]
rs10992448	0.84[CEU][hapmap];0.88[CHB][hapmap];0.83[AMR][1000 genomes]
rs10992453	0.86[CEU][hapmap];0.83[CHB][hapmap];0.80[AMR][1000 genomes]
rs10992460	0.84[CEU][hapmap];0.88[CHB][hapmap]
rs10992461	0.84[CEU][hapmap];0.88[CHB][hapmap]
rs1117670	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs11533010	0.87[AMR][1000 genomes]
rs12236013	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12236754	0.84[CEU][hapmap];0.83[CHB][hapmap];0.83[AMR][1000 genomes]
rs12237216	0.81[AFR][1000 genomes]
rs12238691	0.86[CEU][hapmap];0.83[CHB][hapmap];0.87[AMR][1000 genomes]
rs12684587	0.80[AMR][1000 genomes]
rs12685080	0.89[YRI][hapmap];0.81[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs12685358	0.87[AMR][1000 genomes]
rs12686771	0.84[CEU][hapmap]
rs12686780	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12686781	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1323523	1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1326775	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1552908	0.85[JPT][hapmap];0.85[ASN][1000 genomes]
rs17366488	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1853468	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]
rs1874128	0.82[YRI][hapmap];0.80[ASN][1000 genomes]
rs1980705	0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs2038685	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2088054	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2088055	0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2131919	0.91[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2146848	1.00[CEU][hapmap]
rs2148537	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2172716	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2181584	0.86[CEU][hapmap];0.83[CHB][hapmap];0.87[AMR][1000 genomes]
rs2274413	0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs2281888	0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs3739605	0.84[CEU][hapmap];0.88[CHB][hapmap];0.87[AMR][1000 genomes]
rs4141966	0.81[CEU][hapmap]
rs58952648	0.87[AMR][1000 genomes]
rs60498616	0.87[AMR][1000 genomes]
rs6479426	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs67601697	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7031163	0.84[CEU][hapmap];0.88[CHB][hapmap];0.80[AMR][1000 genomes]
rs753804	0.87[AMR][1000 genomes]
rs754600	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7853617	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7856147	1.00[CEU][hapmap];0.94[CHB][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7857105	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7857502	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7863882	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7869603	0.87[AMR][1000 genomes]
rs7875050	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs912261	0.94[CHB][hapmap];0.93[YRI][hapmap]
rs912264	1.00[CEU][hapmap];0.89[CHB][hapmap];0.83[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs971984	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1575460	CENPP	cis	multi-tissue	Pritchard

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95363400-95396000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr9:95370600-95394000	Weak transcription	Psoas Muscle	Psoas
3	chr9:95371400-95398200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr9:95371800-95399000	Weak transcription	Aorta	Aorta
5	chr9:95371800-95407400	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr9:95372000-95394200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr9:95373000-95421200	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr9:95373200-95399200	Weak transcription	Small Intestine	intestine
9	chr9:95374000-95394000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr9:95375200-95405000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr9:95375400-95403000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr9:95378200-95393800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr9:95378200-95394000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr9:95378200-95394000	Weak transcription	Brain Substantia Nigra	brain
15	chr9:95378200-95394200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr9:95378200-95403600	Weak transcription	Fetal Brain Male	brain
17	chr9:95378400-95394000	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr9:95378800-95393800	Weak transcription	Fetal Kidney	kidney
19	chr9:95378800-95394000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr9:95379600-95394400	Weak transcription	NHDF-Ad	bronchial
21	chr9:95380000-95397200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr9:95380800-95393800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr9:95380800-95400600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr9:95380800-95429000	Weak transcription	Stomach Mucosa	stomach
25	chr9:95381000-95393800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
26	chr9:95381400-95402800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr9:95381600-95390400	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr9:95381600-95396000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr9:95381800-95393800	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr9:95382000-95389800	Weak transcription	K562	blood
31	chr9:95382000-95394600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr9:95382200-95393800	Weak transcription	Placenta Amnion	Placenta Amnion
33	chr9:95382400-95392200	Weak transcription	Brain Anterior Caudate	brain
34	chr9:95382600-95393800	Weak transcription	Brain Inferior Temporal Lobe	brain
35	chr9:95382800-95392000	Weak transcription	NHLF	lung
36	chr9:95382800-95393200	Weak transcription	Right Ventricle	heart
37	chr9:95382800-95393800	Weak transcription	Brain Angular Gyrus	brain
38	chr9:95382800-95393800	Weak transcription	Pancreas	Pancrea
39	chr9:95382800-95394000	Weak transcription	H9 Cell Line	embryonic stem cell
40	chr9:95382800-95394000	Weak transcription	HUES48 Cell Line	embryonic stem cell
41	chr9:95382800-95394400	Weak transcription	Colonic Mucosa	Colon
42	chr9:95382800-95397000	Weak transcription	Fetal Heart	heart
43	chr9:95383000-95393600	Weak transcription	Spleen	Spleen
44	chr9:95383000-95395600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
45	chr9:95383200-95390000	Weak transcription	Cortex derived primary cultured neurospheres	brain
46	chr9:95383200-95392600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr9:95383200-95393800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr9:95383200-95394200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
49	chr9:95383200-95394200	Weak transcription	Rectal Smooth Muscle	rectum
50	chr9:95383400-95390200	Weak transcription	Primary T helper cells PMA-I stimulated	--

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