Variant report

Variant	rs2835389
Chromosome Location	chr21:37913465-37913466
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs11909578	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13046506	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13047871	0.85[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs13049189	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13049736	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1892908	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1892909	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2015187	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2187304	0.92[CEU][hapmap];0.86[JPT][hapmap];0.87[EUR][1000 genomes]
rs2835382	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2835383	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2835388	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2835390	0.81[CHB][hapmap];0.90[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs377483	0.81[CHB][hapmap];0.90[JPT][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs377777	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs386394	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs412510	1.00[ASW][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.81[LWK][hapmap];0.88[MEX][hapmap];0.82[YRI][hapmap]
rs420352	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs430159	0.81[CHB][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap]
rs431741	0.81[CHB][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap]
rs432137	0.81[CHB][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap]
rs438064	0.81[CHB][hapmap];0.90[JPT][hapmap];0.88[MEX][hapmap]
rs438492	0.81[CHB][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap]
rs450932	0.81[CHB][hapmap];0.90[JPT][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4817806	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4817807	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4817808	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6517361	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs70940557	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8128229	0.80[EUR][1000 genomes]
rs876780	0.81[CHB][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap]
rs914148	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9305590	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9305591	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9305592	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9305594	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9305595	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9653721	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9980855	0.87[EUR][1000 genomes]
rs9981041	0.84[AMR][1000 genomes];0.89[EUR][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	nsv834090	chr21:37812545-38009542	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1064290	chr21:37878964-37983133	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	esv3384461	chr21:37910382-37913780	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS	lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2835389	DNAJC28	cis	cerebellum	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:37909400-37914400	Weak transcription	Placenta	Placenta
2	chr21:37912400-37914200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr21:37912400-37914800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr21:37912400-37916400	Weak transcription	Pancreas	Pancrea
5	chr21:37912800-37914600	Active TSS	GM12878-XiMat	blood

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