Variant report

Variant	rs6504210
Chromosome Location	chr17:46472712-46472713
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	chr17:46471699..46474212-chr17:46481044..46483514,2	K562	blood:

Extended variants
information (count: 34 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs12603827	0.86[ASN][1000 genomes]
rs12937347	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1396868	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1509635	0.87[JPT][hapmap]
rs1553750	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2123344	0.91[CHB][hapmap];1.00[CHD][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs2924250	0.91[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs2924254	0.90[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs2938470	1.00[ASW][hapmap];0.90[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.83[MEX][hapmap];0.98[MKK][hapmap];1.00[YRI][hapmap];0.88[ASN][1000 genomes]
rs3826397	0.94[YRI][hapmap]
rs4239201	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4324172	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4423463	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4606751	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4793816	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6504160	1.00[ASW][hapmap];0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7209556	0.84[MEX][hapmap]
rs7211099	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7211780	0.90[CHB][hapmap];0.87[JPT][hapmap];0.81[MKK][hapmap];1.00[YRI][hapmap]
rs7212220	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7213149	0.90[ASN][1000 genomes]
rs7216202	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7218287	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7218563	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7221510	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8072002	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8073326	0.81[ASN][1000 genomes]
rs8073710	0.84[MEX][hapmap]
rs8077516	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8077763	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9303541	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap]
rs9797269	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9898383	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9906658	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs6504210	RND2	cis	parietal	SCAN
rs6504210	CDK5RAP3	cis	cerebellum	SCAN
rs6504210	SKAP1	Cis_1M	lymphoblastoid	RTeQTL
rs6504210	CDK5RAP3	cis	parietal	SCAN

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:46462400-46474200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
2	chr17:46466000-46474600	Strong transcription	Primary T cells fromperipheralblood	blood
3	chr17:46469200-46476800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr17:46470400-46473600	Strong transcription	Fetal Thymus	thymus
5	chr17:46470600-46474200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr17:46470600-46474200	Strong transcription	GM12878-XiMat	blood
7	chr17:46470600-46479200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
8	chr17:46471600-46475800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr17:46471800-46473200	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood
10	chr17:46471800-46473200	Strong transcription	Thymus	Thymus
11	chr17:46471800-46474200	Strong transcription	Primary B cells from peripheral blood	blood
12	chr17:46472000-46474600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr17:46472200-46472800	Enhancers	Primary T helper naive cells from peripheral blood	blood
14	chr17:46472200-46472800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr17:46472200-46473400	Genic enhancers	Primary T helper cells fromperipheralblood	blood
16	chr17:46472200-46473800	Genic enhancers	Primary T helper cells PMA-I stimulated	--
17	chr17:46472400-46472800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
18	chr17:46472400-46473200	Genic enhancers	Primary T cells from cord blood	blood
19	chr17:46472400-46473200	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
20	chr17:46472600-46472800	Genic enhancers	Primary T helper memory cells from peripheral blood 1	blood
21	chr17:46472600-46473400	Bivalent Enhancer	Fetal Lung	lung
22	chr17:46472600-46474200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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