Variant report

Variant	rs12407474
Chromosome Location	chr1:56353578-56353579
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10493182	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs10493184	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs10789010	0.96[ASN][1000 genomes]
rs11206666	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11579959	0.89[ASN][1000 genomes]
rs12021672	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12022490	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12028981	0.97[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12033494	0.97[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12034422	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12040991	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12042939	0.93[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12045580	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12403234	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12404504	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12406573	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12409446	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12563455	0.88[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs17112899	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs17112961	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs17113003	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4244650	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4244652	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4244653	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4271254	0.89[ASN][1000 genomes]
rs4330956	0.94[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4353139	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4367815	0.86[CHB][hapmap];0.96[ASN][1000 genomes]
rs4378251	0.89[ASN][1000 genomes]
rs4384274	0.89[ASN][1000 genomes]
rs4394699	0.89[ASN][1000 genomes]
rs4474303	0.89[ASN][1000 genomes]
rs4559553	0.88[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4576690	0.89[ASN][1000 genomes]
rs4593870	0.89[ASN][1000 genomes]
rs4625325	0.89[ASN][1000 genomes]
rs4633318	0.89[ASN][1000 genomes]
rs4926702	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4927265	0.85[AMR][1000 genomes]
rs4927273	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4927278	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4927283	0.89[ASN][1000 genomes]
rs4927284	0.89[ASN][1000 genomes]
rs61774842	0.89[ASN][1000 genomes]
rs6588580	0.94[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs6588589	0.89[ASN][1000 genomes]
rs6684334	0.80[ASN][1000 genomes]
rs6684428	0.89[ASN][1000 genomes]
rs6687146	0.88[AMR][1000 genomes];0.96[ASN][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	nsv829926	chr1:56188492-56360745	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:56346000-56354600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr1:56350800-56353800	Enhancers	Fetal Stomach	stomach
3	chr1:56353000-56353600	Enhancers	Fetal Intestine Small	intestine
4	chr1:56353000-56354400	Weak transcription	NHDF-Ad	bronchial
5	chr1:56353400-56354400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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