Variant report

Variant	rs2413928
Chromosome Location	chr15:49354728-49354729
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:49148960..49151118-chr15:49354539..49356746,2	K562	blood:
2	chr15:49351455..49354090-chr15:49354572..49357346,2	MCF-7	breast:
3	chr15:49349932..49352562-chr15:49353370..49355635,2	K562	blood:

Extended variants
information (count: 41 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10431775	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1054307	0.85[CEU][hapmap]
rs10775139	0.92[CEU][hapmap];0.80[CHB][hapmap];0.84[EUR][1000 genomes]
rs11070682	1.00[CEU][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11070683	0.85[EUR][1000 genomes]
rs11542124	0.82[ASN][1000 genomes]
rs11637991	0.90[EUR][1000 genomes]
rs11638215	0.88[CEU][hapmap];0.95[CHB][hapmap]
rs11639379	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11855740	0.89[CEU][hapmap]
rs11858917	0.91[ASN][1000 genomes]
rs12148348	0.91[EUR][1000 genomes]
rs12440709	0.84[EUR][1000 genomes]
rs12442679	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12898691	0.84[EUR][1000 genomes]
rs12898709	0.86[YRI][hapmap]
rs12902875	0.81[EUR][1000 genomes]
rs12904344	0.91[CHB][hapmap];0.90[JPT][hapmap];0.81[YRI][hapmap];0.80[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs12916287	0.97[ASN][1000 genomes]
rs16962017	0.84[CHB][hapmap]
rs16962057	0.91[EUR][1000 genomes]
rs2413931	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs28676698	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs28724568	0.87[EUR][1000 genomes]
rs2899427	1.00[CEU][hapmap];0.86[YRI][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4284578	0.89[CEU][hapmap]
rs4390538	0.90[JPT][hapmap]
rs4536401	0.89[CEU][hapmap];0.95[CHB][hapmap]
rs4775795	0.89[CEU][hapmap]
rs62013266	0.90[EUR][1000 genomes]
rs6493346	0.88[CEU][hapmap];0.95[CHB][hapmap]
rs7162602	0.88[EUR][1000 genomes]
rs7165264	0.89[CEU][hapmap];0.95[CHB][hapmap]
rs7166261	0.90[ASN][1000 genomes]
rs7167402	0.88[CEU][hapmap]
rs7179301	0.92[EUR][1000 genomes]
rs8029751	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs8029914	0.88[CEU][hapmap]
rs8033060	0.90[JPT][hapmap]
rs877007	0.89[CEU][hapmap];0.95[CHB][hapmap]
rs935003	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2413928	GALK2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49351400-49358800	Enhancers	Placenta	Placenta
2	chr15:49352200-49355200	Enhancers	Primary T cells from cord blood	blood
3	chr15:49352200-49356200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
4	chr15:49352200-49358600	Enhancers	Placenta Amnion	Placenta Amnion
5	chr15:49352400-49354800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr15:49352400-49356800	Enhancers	Primary T cells fromperipheralblood	blood
7	chr15:49353200-49356000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr15:49353200-49357400	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr15:49353400-49355800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr15:49353600-49355600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr15:49353600-49355600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr15:49353600-49355800	Weak transcription	NHLF	lung
13	chr15:49353800-49355800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr15:49353800-49356000	Weak transcription	Hela-S3	cervix
15	chr15:49353800-49356200	Weak transcription	Fetal Thymus	thymus
16	chr15:49353800-49356600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr15:49354000-49355200	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr15:49354000-49355800	Enhancers	Lung	lung
19	chr15:49354000-49358600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr15:49354200-49355200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr15:49354200-49355400	Weak transcription	Primary T helper cells fromperipheralblood	blood
22	chr15:49354400-49355600	Weak transcription	Primary T helper cells PMA-I stimulated	--
23	chr15:49354600-49355000	Enhancers	Ovary	ovary

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