Variant report

Variant	rs6049804
Chromosome Location	chr20:24578856-24578857
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs16986777	1.00[CEU][hapmap]
rs16986779	1.00[CEU][hapmap];0.83[CHB][hapmap];0.94[AMR][1000 genomes]
rs4087431	0.80[ASN][1000 genomes]
rs4813525	0.85[JPT][hapmap]
rs4815280	0.86[JPT][hapmap]
rs4815281	0.86[JPT][hapmap]
rs4815283	0.86[JPT][hapmap]
rs6036845	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6036846	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6036850	0.85[JPT][hapmap]
rs6049796	0.92[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];0.98[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6049798	0.86[JPT][hapmap]
rs6049801	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6049803	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6049809	1.00[CEU][hapmap];0.92[CHB][hapmap];0.85[JPT][hapmap];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6083557	0.82[EUR][1000 genomes]
rs6106914	0.94[AMR][1000 genomes]
rs6106915	1.00[CEU][hapmap];0.83[CHB][hapmap];0.86[MEX][hapmap];0.85[TSI][hapmap];0.94[AMR][1000 genomes]
rs6114791	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6114802	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62215308	0.95[EUR][1000 genomes]
rs62215309	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62215310	0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7268328	0.83[AMR][1000 genomes]
rs73098723	0.93[EUR][1000 genomes]
rs742803	1.00[CEU][hapmap];0.83[CHB][hapmap];0.86[MEX][hapmap];0.85[TSI][hapmap];0.83[AMR][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	esv3332519	chr20:24535099-24815615	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6049804	ACSS1	cis	parietal	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24571400-24584800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr20:24574600-24580200	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr20:24577600-24580000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr20:24578800-24579600	Enhancers	Primary T cells from cord blood	blood

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