Variant report

Variant	rs10828726
Chromosome Location	chr10:18744948-18744949
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1001486	0.85[CHB][hapmap]
rs10508561	0.85[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10741073	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10828704	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11014256	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11014261	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11014266	0.87[ASN][1000 genomes]
rs11014284	0.88[ASN][1000 genomes]
rs11014299	0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs11014302	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11014317	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11014337	0.84[ASN][1000 genomes]
rs12220716	0.85[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs16917251	0.82[JPT][hapmap]
rs17692465	0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs55761512	0.83[ASN][1000 genomes]
rs7090956	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7091297	0.84[ASN][1000 genomes]
rs7091299	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7099509	0.96[CEU][hapmap];0.91[TSI][hapmap];0.85[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv550042	chr10:18683267-18994583	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10828726	SPAG6	cis	cerebellum	SCAN

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18732400-18801600	Weak transcription	Pancreas	Pancrea
2	chr10:18739000-18752600	Weak transcription	Right Atrium	heart
3	chr10:18739000-18761000	Weak transcription	Colon Smooth Muscle	Colon
4	chr10:18739800-18745400	Weak transcription	Left Ventricle	heart
5	chr10:18741600-18763200	Weak transcription	Fetal Stomach	stomach
6	chr10:18742000-18745000	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr10:18743400-18745200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
8	chr10:18743400-18746200	Enhancers	Dnd41	blood
9	chr10:18743800-18745400	Enhancers	Placenta	Placenta
10	chr10:18744200-18745000	Enhancers	Pancreatic Islets	Pancreatic Islet
11	chr10:18744400-18761800	Weak transcription	Ovary	ovary
12	chr10:18744600-18746400	Enhancers	Fetal Heart	heart
13	chr10:18744800-18745400	Enhancers	Right Ventricle	heart
14	chr10:18744800-18745600	Enhancers	Primary B cells from cord blood	blood

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