Variant report

Variant	rs2915894
Chromosome Location	chr5:151195933-151195934
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:151187727..151190310-chr5:151192667..151196018,4	K562	blood:
2	chr5:151157780..151160466-chr5:151195592..151198103,2	K562	blood:
3	chr5:151188774..151191412-chr5:151194623..151196170,2	K562	blood:
4	chr5:151191383..151193139-chr5:151194985..151197571,2	MCF-7	breast:

Extended variants
information (count: 147 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:147)

rs_ID	r²[population]
rs10044368	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10065313	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10075101	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10078632	0.80[EUR][1000 genomes]
rs10079787	0.80[EUR][1000 genomes]
rs1042877	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10463320	0.80[EUR][1000 genomes]
rs10476776	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10476778	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1062177	0.94[CHB][hapmap];0.90[CHD][hapmap];0.85[ASN][1000 genomes]
rs11167557	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11167559	0.80[EUR][1000 genomes]
rs11954338	0.98[EUR][1000 genomes]
rs12108921	1.00[CEU][hapmap];0.94[CHB][hapmap];0.84[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.80[EUR][1000 genomes]
rs12109022	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs12109585	0.80[EUR][1000 genomes]
rs12654877	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12658422	0.96[EUR][1000 genomes]
rs1366238	0.81[EUR][1000 genomes]
rs1428159	0.80[EUR][1000 genomes]
rs1428160	0.80[EUR][1000 genomes]
rs1433041	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1549920	0.94[CHB][hapmap];0.85[CHD][hapmap];0.81[ASN][1000 genomes]
rs1549921	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17741826	0.94[CHB][hapmap]
rs17804178	0.85[ASN][1000 genomes]
rs1978710	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2016409	0.81[ASN][1000 genomes]
rs2053063	0.85[ASN][1000 genomes]
rs2347596	0.85[ASN][1000 genomes]
rs2347597	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2913878	0.80[EUR][1000 genomes]
rs2913881	0.80[EUR][1000 genomes]
rs2913888	0.80[EUR][1000 genomes]
rs2913889	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs2913892	1.00[CEU][hapmap];0.94[CHB][hapmap];0.84[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.80[EUR][1000 genomes]
rs2913893	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs2913894	1.00[CEU][hapmap];0.94[CHB][hapmap];0.82[CHD][hapmap];0.83[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.80[EUR][1000 genomes]
rs2915816	0.87[ASN][1000 genomes]
rs2915821	0.84[ASN][1000 genomes]
rs2915822	0.94[CHB][hapmap];0.85[CHD][hapmap];0.81[ASN][1000 genomes]
rs2915823	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2915824	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2915826	0.94[CHB][hapmap]
rs2915827	0.94[CHB][hapmap]
rs2915829	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2915868	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2915869	0.85[ASN][1000 genomes]
rs2915870	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2915871	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2915872	0.92[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2915873	0.82[ASN][1000 genomes]
rs2915874	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2915876	0.94[CHB][hapmap];0.85[CHD][hapmap]
rs2915878	0.94[CHB][hapmap]
rs2915879	0.94[CHB][hapmap];0.81[ASN][1000 genomes]
rs2915880	0.94[CHB][hapmap];0.81[ASN][1000 genomes]
rs2915881	0.81[ASN][1000 genomes]
rs2915882	0.81[ASN][1000 genomes]
rs2915883	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2915885	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2915886	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2915887	0.82[ASN][1000 genomes]
rs2915888	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2915890	0.95[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2915891	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2915892	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2915893	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2964568	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2964569	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2964570	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2964571	0.85[ASN][1000 genomes]
rs2964572	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2964573	0.82[ASN][1000 genomes]
rs2964574	0.94[CHB][hapmap];0.87[CHD][hapmap];0.82[ASN][1000 genomes]
rs2964577	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2964578	0.81[ASN][1000 genomes]
rs2964580	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2964581	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2964582	0.81[ASN][1000 genomes]
rs2964584	0.94[CHB][hapmap];0.85[CHD][hapmap];0.81[ASN][1000 genomes]
rs2964585	0.82[ASN][1000 genomes]
rs2964587	0.94[CHB][hapmap]
rs2964591	0.94[CHB][hapmap]
rs2964592	0.94[CHB][hapmap]
rs2964597	0.80[EUR][1000 genomes]
rs2964599	0.80[EUR][1000 genomes]
rs2964601	0.80[EUR][1000 genomes]
rs2964604	0.80[EUR][1000 genomes]
rs2964606	0.80[EUR][1000 genomes]
rs2964610	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2964611	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2964612	0.83[ASN][1000 genomes]
rs2964613	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35692301	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3812003	0.91[ASW][hapmap]
rs4075273	0.80[EUR][1000 genomes]
rs4076138	0.80[EUR][1000 genomes]
rs4259159	0.80[EUR][1000 genomes]
rs4331885	0.80[EUR][1000 genomes]
rs4360031	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4362933	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4379180	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4419575	0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4472253	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4478307	0.80[EUR][1000 genomes]
rs4510568	0.98[EUR][1000 genomes]
rs4541649	0.97[EUR][1000 genomes]
rs4555782	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4571461	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4594844	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4629583	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4629586	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62394144	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6579897	0.94[CHB][hapmap]
rs6579906	0.97[EUR][1000 genomes]
rs6579908	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6579909	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6579910	0.91[EUR][1000 genomes]
rs6863833	0.96[EUR][1000 genomes]
rs6863837	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6868371	0.80[EUR][1000 genomes]
rs6878691	0.80[EUR][1000 genomes]
rs6879461	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6896518	0.80[EUR][1000 genomes]
rs72802204	0.85[ASN][1000 genomes]
rs72802219	0.80[EUR][1000 genomes]
rs7341167	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7702751	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7711609	0.80[EUR][1000 genomes]
rs7711771	0.80[EUR][1000 genomes]
rs7712779	0.80[EUR][1000 genomes]
rs7715560	0.91[EUR][1000 genomes]
rs7715874	0.93[EUR][1000 genomes]
rs7719617	0.92[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap]
rs7720579	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7725327	0.80[EUR][1000 genomes]
rs7728956	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap]
rs7729026	0.80[EUR][1000 genomes]
rs7733241	1.00[CEU][hapmap];0.94[CHB][hapmap];0.84[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7734314	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7735811	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs892005	0.85[ASN][1000 genomes]
rs892006	0.94[CHB][hapmap];0.87[CHD][hapmap];0.85[ASN][1000 genomes]
rs9324712	0.80[EUR][1000 genomes]
rs9324714	0.80[EUR][1000 genomes]
rs973529	0.85[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2915894	C5orf46	cis	parietal	SCAN
rs2915894	SYNPO	cis	parietal	SCAN

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:151164000-151196600	Strong transcription	Hela-S3	cervix
2	chr5:151164000-151207600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr5:151164600-151197000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr5:151164800-151196600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
5	chr5:151164800-151196800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr5:151165200-151197200	Strong transcription	HUES64 Cell Line	embryonic stem cell
7	chr5:151165600-151197200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr5:151165800-151196200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
9	chr5:151165800-151196800	Strong transcription	GM12878-XiMat	blood
10	chr5:151165800-151197000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
11	chr5:151166000-151196400	Strong transcription	Fetal Thymus	thymus
12	chr5:151166000-151196600	Strong transcription	Primary T cells fromperipheralblood	blood
13	chr5:151166000-151196800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr5:151166000-151197000	Strong transcription	HUES48 Cell Line	embryonic stem cell
15	chr5:151166200-151196800	Strong transcription	Liver	Liver
16	chr5:151171800-151205200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr5:151179000-151198600	Strong transcription	A549	lung
18	chr5:151179600-151196400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr5:151179800-151208400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr5:151183000-151199600	Weak transcription	Small Intestine	intestine
21	chr5:151183600-151210600	Weak transcription	Lung	lung
22	chr5:151183800-151196200	Weak transcription	Esophagus	oesophagus
23	chr5:151183800-151196400	Strong transcription	HUVEC	blood vessel
24	chr5:151183800-151199600	Weak transcription	Fetal Intestine Small	intestine
25	chr5:151183800-151200200	Weak transcription	Brain Cingulate Gyrus	brain
26	chr5:151183800-151203000	Weak transcription	Gastric	stomach
27	chr5:151183800-151204400	Weak transcription	Pancreas	Pancrea
28	chr5:151183800-151206000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr5:151183800-151208400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr5:151183800-151209600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr5:151183800-151213400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr5:151184000-151200400	Weak transcription	Brain Angular Gyrus	brain
33	chr5:151185600-151197000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr5:151188200-151210400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
35	chr5:151188600-151196800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr5:151189200-151196400	Strong transcription	HMEC	breast
37	chr5:151189200-151196800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr5:151189400-151196600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr5:151190000-151204800	Weak transcription	Fetal Stomach	stomach
40	chr5:151190200-151197000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr5:151190400-151196800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr5:151190400-151199600	Weak transcription	Brain Inferior Temporal Lobe	brain
43	chr5:151190400-151210400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr5:151191800-151196400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr5:151191800-151197000	Strong transcription	NH-A	brain
46	chr5:151191800-151197200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
47	chr5:151192200-151208200	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr5:151192400-151198200	Weak transcription	Brain Germinal Matrix	brain
49	chr5:151192400-151205200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
50	chr5:151192400-151209800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood

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