Variant report

Variant	rs3822090
Chromosome Location	chr4:90704876-90704877
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10003708	0.81[ASN][1000 genomes]
rs10014396	0.81[EUR][1000 genomes]
rs10018362	0.81[EUR][1000 genomes]
rs10025915	0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs10033209	0.82[ASN][1000 genomes]
rs10433953	0.99[ASN][1000 genomes]
rs1045722	0.82[ASN][1000 genomes]
rs10516845	0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs11097238	0.80[JPT][hapmap]
rs11931062	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11935469	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11944331	0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11945223	0.81[ASN][1000 genomes]
rs12648141	0.82[ASN][1000 genomes]
rs17016071	0.82[ASN][1000 genomes]
rs2737029	0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs28393675	0.81[ASN][1000 genomes]
rs28412513	0.82[ASN][1000 genomes]
rs28613708	0.81[ASN][1000 genomes]
rs28781297	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs35495602	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs35541731	0.82[ASN][1000 genomes]
rs356165	0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs356203	0.82[ASN][1000 genomes]
rs3756054	0.89[CEU][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs3775422	0.81[ASN][1000 genomes]
rs3775423	0.89[CEU][hapmap];0.82[ASN][1000 genomes]
rs3775424	0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs3775427	0.99[ASN][1000 genomes]
rs3775433	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs3775434	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3775439	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3796661	0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs3822086	0.82[ASN][1000 genomes]
rs3822089	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3857051	0.81[ASN][1000 genomes]
rs3857052	0.81[ASN][1000 genomes]
rs3857053	0.82[ASN][1000 genomes]
rs3857057	0.89[CEU][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs3857058	0.82[ASN][1000 genomes]
rs3857059	0.89[CEU][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs3857061	0.82[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs3899608	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4031753	0.89[CEU][hapmap];0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4088093	0.82[ASN][1000 genomes]
rs4088094	0.82[ASN][1000 genomes]
rs58054215	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs60031383	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs61032876	0.81[ASN][1000 genomes]
rs6822088	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6826785	0.84[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs6834765	0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7356297	0.81[JPT][hapmap]
rs7436973	0.81[ASN][1000 genomes]
rs7655611	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7655792	0.81[ASN][1000 genomes]
rs7661330	0.89[CEU][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs7675290	0.82[ASN][1000 genomes]
rs7684318	0.82[ASN][1000 genomes]
rs7690873	0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7698672	0.86[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs8180209	0.82[ASN][1000 genomes]
rs8180214	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2830400	chr4:90085456-90922432	Flanking Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv1012406	chr4:90167781-91166787	Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv949454	chr4:90272120-91156917	Flanking Bivalent TSS/Enh Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv879536	chr4:90678541-90775212	Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:90676200-90709200	Weak transcription	HUVEC	blood vessel
2	chr4:90687200-90718400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr4:90693000-90709400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr4:90697000-90711000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr4:90700000-90708600	Weak transcription	Fetal Brain Male	brain
6	chr4:90702200-90709400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr4:90703000-90712600	Weak transcription	Primary hematopoietic stem cells	blood
8	chr4:90703800-90706000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr4:90704800-90705000	Enhancers	Brain Anterior Caudate	brain
10	chr4:90704800-90705200	Enhancers	Brain Cingulate Gyrus	brain
11	chr4:90704800-90705600	Enhancers	Brain Angular Gyrus	brain
12	chr4:90704800-90706200	Enhancers	Fetal Lung	lung

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