Variant report

Variant	rs57575542
Chromosome Location	chr3:23359044-23359045
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10451986	0.88[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs11129114	0.87[EUR][1000 genomes]
rs11921580	0.95[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs11928344	0.90[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs12185989	0.93[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs12636682	0.89[EUR][1000 genomes]
rs17343818	0.89[EUR][1000 genomes]
rs17403650	0.95[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs2884787	0.87[EUR][1000 genomes]
rs4368441	0.80[EUR][1000 genomes]
rs57624654	0.93[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs57869672	0.92[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs58856801	0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs60407944	0.92[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs6762615	0.89[EUR][1000 genomes]
rs6765562	0.92[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs6773311	0.89[EUR][1000 genomes]
rs6776770	0.88[EUR][1000 genomes]
rs6792462	0.88[EUR][1000 genomes]
rs7428484	0.89[EUR][1000 genomes]
rs7610971	0.94[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs7613733	0.92[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs7613969	0.87[EUR][1000 genomes]
rs7614926	0.90[EUR][1000 genomes]
rs7622913	0.93[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs7632520	0.89[EUR][1000 genomes]
rs7636536	0.87[EUR][1000 genomes]
rs7638278	0.86[EUR][1000 genomes]
rs7638405	0.96[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs7641764	0.88[EUR][1000 genomes]
rs7646505	0.96[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs7649682	0.89[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs7651175	0.90[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs903518	0.89[EUR][1000 genomes]
rs9820931	0.84[EUR][1000 genomes]
rs9825835	0.86[EUR][1000 genomes]
rs9839409	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014701	chr3:23257658-23416094	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv589947	chr3:23277838-23403943	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1002823	chr3:23277838-23623083	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv589948	chr3:23287141-23390221	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1004417	chr3:23318797-23389422	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23350600-23366400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:23350800-23362600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr3:23351000-23362400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:23353800-23362800	Weak transcription	Left Ventricle	heart
5	chr3:23355200-23365400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr3:23355800-23362800	Weak transcription	Esophagus	oesophagus
7	chr3:23355800-23366000	Weak transcription	Ovary	ovary
8	chr3:23356800-23361400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr3:23356800-23365400	Weak transcription	Brain Anterior Caudate	brain
10	chr3:23356800-23367600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr3:23357000-23378800	Weak transcription	Brain Angular Gyrus	brain
12	chr3:23357600-23361200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr3:23357600-23366600	Weak transcription	Brain Substantia Nigra	brain
14	chr3:23357800-23366000	Weak transcription	HSMM	muscle
15	chr3:23358400-23366400	Weak transcription	HSMMtube	muscle
16	chr3:23358600-23359200	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
17	chr3:23358600-23359400	ZNF genes & repeats	Fetal Stomach	stomach
18	chr3:23358600-23362000	Weak transcription	Psoas Muscle	Psoas
19	chr3:23358600-23362800	Weak transcription	Spleen	Spleen
20	chr3:23358800-23362600	Weak transcription	Brain Hippocampus Middle	brain
21	chr3:23358800-23362800	Weak transcription	Right Ventricle	heart
22	chr3:23359000-23360800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr3:23359000-23362400	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr3:23359000-23363000	Weak transcription	Skeletal Muscle Female	skeletal muscle

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