Variant report

Variant	rs2861572
Chromosome Location	chr10:98085856-98085857
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 72 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10509708	1.00[CHB][hapmap];0.81[CHD][hapmap];0.89[GIH][hapmap];1.00[MEX][hapmap]
rs10748673	1.00[JPT][hapmap]
rs10786277	0.81[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.94[ASN][1000 genomes]
rs10786278	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10786279	0.86[CEU][hapmap];1.00[CHB][hapmap];0.94[ASN][1000 genomes]
rs10786281	1.00[JPT][hapmap]
rs10786282	0.82[JPT][hapmap]
rs10882772	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];0.83[GIH][hapmap];1.00[MEX][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10882773	0.81[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.94[ASN][1000 genomes]
rs10882774	0.90[ASN][1000 genomes]
rs10882777	1.00[JPT][hapmap]
rs10882778	1.00[JPT][hapmap]
rs10882783	0.82[JPT][hapmap]
rs11188697	0.85[CHB][hapmap]
rs11188704	1.00[CHB][hapmap];0.81[CHD][hapmap];0.82[GIH][hapmap];1.00[MEX][hapmap];0.82[AMR][1000 genomes]
rs11188705	1.00[CHB][hapmap];0.82[AMR][1000 genomes]
rs11188709	1.00[CEU][hapmap];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11188724	0.81[CEU][hapmap];0.82[TSI][hapmap]
rs11188725	0.81[CEU][hapmap];0.82[TSI][hapmap]
rs11188734	1.00[JPT][hapmap]
rs11188735	1.00[JPT][hapmap]
rs11188736	1.00[JPT][hapmap]
rs11591467	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];0.86[GIH][hapmap];1.00[MEX][hapmap];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11593073	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11593074	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11593503	1.00[CEU][hapmap];1.00[CHB][hapmap];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11597348	1.00[CEU][hapmap];0.85[CHB][hapmap];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11598258	1.00[CHB][hapmap];0.81[CHD][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap]
rs11818883	1.00[JPT][hapmap]
rs11818896	1.00[JPT][hapmap]
rs11818942	0.89[CEU][hapmap]
rs12269557	1.00[CHB][hapmap];0.81[CHD][hapmap];0.89[GIH][hapmap];1.00[MEX][hapmap]
rs12571241	0.81[CEU][hapmap];0.82[TSI][hapmap]
rs12572329	0.81[CEU][hapmap];0.82[TSI][hapmap]
rs12761715	1.00[CHB][hapmap];0.81[CHD][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap]
rs12766367	1.00[CHB][hapmap];0.81[CHD][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap]
rs12772674	1.00[CHB][hapmap];0.81[CHD][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap]
rs12774154	1.00[CHB][hapmap];0.81[CHD][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap]
rs12779164	1.00[CHB][hapmap]
rs12779564	1.00[CHB][hapmap];0.81[CHD][hapmap];0.96[GIH][hapmap];0.88[MEX][hapmap]
rs17111609	1.00[CHB][hapmap];0.81[CHD][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap]
rs17111612	1.00[CHB][hapmap];0.81[CHD][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap]
rs17111614	1.00[CHB][hapmap]
rs17111622	1.00[CHB][hapmap]
rs17111628	1.00[CHB][hapmap];0.92[GIH][hapmap];1.00[MEX][hapmap]
rs17111733	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1923703	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1923707	0.81[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.94[ASN][1000 genomes]
rs1923708	0.81[CEU][hapmap];1.00[CHB][hapmap];0.94[ASN][1000 genomes]
rs2146393	0.81[CEU][hapmap]
rs2146394	0.81[CEU][hapmap];1.00[CHB][hapmap];0.94[ASN][1000 genomes]
rs2154183	0.81[CEU][hapmap];0.94[ASN][1000 genomes]
rs2181320	0.81[YRI][hapmap]
rs2273891	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2901989	0.81[CEU][hapmap]
rs2901990	1.00[JPT][hapmap]
rs3789937	1.00[CHB][hapmap];0.81[CHD][hapmap];0.89[GIH][hapmap];1.00[MEX][hapmap]
rs3789942	1.00[JPT][hapmap]
rs3814223	1.00[JPT][hapmap]
rs3818313	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4917732	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7073871	1.00[CHB][hapmap];0.81[CHD][hapmap];0.89[GIH][hapmap];1.00[MEX][hapmap]
rs7077344	1.00[CEU][hapmap];0.85[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7096879	0.94[ASN][1000 genomes]
rs72811058	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7893551	0.88[CEU][hapmap];1.00[CHB][hapmap];0.94[ASN][1000 genomes]
rs941993	0.83[AFR][1000 genomes]
rs941994	0.83[AFR][1000 genomes]
rs941995	0.92[YRI][hapmap];0.83[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	esv2761620	chr10:98047045-98089749	Enhancers Flanking Active TSS Genic enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv831950	chr10:98080972-98245434	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2861572	GOT1	cis	cerebellum	SCAN
rs2861572	CHUK	cis	parietal	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98075400-98088800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr10:98077800-98089600	Strong transcription	Dnd41	blood
3	chr10:98077800-98091800	Strong transcription	Thymus	Thymus
4	chr10:98080400-98089200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr10:98084400-98089000	Strong transcription	Fetal Thymus	thymus
6	chr10:98085000-98086000	Enhancers	GM12878-XiMat	blood

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