Variant report

Variant	rs6036832
Chromosome Location	chr20:24521735-24521736
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs13041310	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1555892	0.88[LWK][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2386956	1.00[ASW][hapmap];0.89[CEU][hapmap];1.00[LWK][hapmap];0.86[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4283490	0.82[AMR][1000 genomes]
rs6049755	0.89[CEU][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6049757	0.89[CEU][hapmap];1.00[LWK][hapmap];0.82[MEX][hapmap];0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6049758	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6049759	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6049760	0.89[CEU][hapmap];0.81[MEX][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6049765	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6049768	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6049771	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6049775	1.00[ASW][hapmap];0.89[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6076233	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6076235	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6114752	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6114757	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6114768	0.89[ASW][hapmap];0.95[CEU][hapmap];0.85[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.87[MEX][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6132742	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6132743	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6132744	0.89[ASN][1000 genomes]
rs6138316	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6138318	0.89[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6138319	0.84[ASN][1000 genomes]
rs715863	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv9793	chr20:23939613-24734850	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1058146	chr20:24210196-24531087	Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6036832	CST9	cis	parietal	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24504000-24525800	Weak transcription	Aorta	Aorta
2	chr20:24508200-24523800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr20:24510800-24525200	Weak transcription	Left Ventricle	heart
4	chr20:24514800-24525800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr20:24515800-24524800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr20:24516800-24523000	Weak transcription	Brain Hippocampus Middle	brain
7	chr20:24516800-24524200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr20:24517000-24523800	Weak transcription	Brain Cingulate Gyrus	brain
9	chr20:24517200-24526600	Weak transcription	Brain Substantia Nigra	brain
10	chr20:24517200-24526800	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr20:24517400-24524200	Weak transcription	Brain Angular Gyrus	brain
12	chr20:24521200-24528400	Weak transcription	HMEC	breast

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