Variant report

Variant	rs28548600
Chromosome Location	chr4:125458268-125458269
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10050220	0.94[AFR][1000 genomes]
rs11937064	0.81[AFR][1000 genomes]
rs11946186	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12651542	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1388988	0.80[EUR][1000 genomes]
rs1509523	0.95[AFR][1000 genomes]
rs1509525	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1567395	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1567396	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16997797	0.83[EUR][1000 genomes]
rs17831051	0.85[EUR][1000 genomes]
rs28733585	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs312489	0.83[AFR][1000 genomes]
rs312492	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs312497	0.94[AFR][1000 genomes]
rs312498	0.94[AFR][1000 genomes]
rs4340804	0.84[AFR][1000 genomes]
rs4833988	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs55697817	0.86[EUR][1000 genomes]
rs55698707	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56149912	0.85[EUR][1000 genomes]
rs56194872	0.84[EUR][1000 genomes]
rs58293561	0.85[EUR][1000 genomes]
rs58568869	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59780240	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6534441	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6534442	0.85[EUR][1000 genomes]
rs6534443	0.85[EUR][1000 genomes]
rs6534444	0.85[EUR][1000 genomes]
rs6534445	0.85[EUR][1000 genomes]
rs6836758	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6844455	0.86[EUR][1000 genomes]
rs6846869	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6848373	0.85[EUR][1000 genomes]
rs6856045	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6856467	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7670478	0.85[EUR][1000 genomes]
rs7670821	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7675285	0.85[EUR][1000 genomes]
rs9993116	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv868977	chr4:124841128-125550637	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv879880	chr4:125174817-125494547	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	esv2760890	chr4:125273456-125466931	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:125455600-125459000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr4:125456400-125458600	Weak transcription	Fetal Intestine Large	intestine
3	chr4:125456600-125458800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr4:125457800-125458400	Weak transcription	Fetal Intestine Small	intestine
5	chr4:125458200-125459600	Enhancers	HepG2	liver

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