Variant report

Variant	rs10020201
Chromosome Location	chr4:101854024-101854025
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10001284	0.98[AFR][1000 genomes]
rs10001589	0.98[AFR][1000 genomes]
rs10001626	0.98[AFR][1000 genomes]
rs10007981	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10023612	0.98[AFR][1000 genomes]
rs10024061	0.98[AFR][1000 genomes]
rs10025741	0.91[AFR][1000 genomes]
rs10025843	0.86[AFR][1000 genomes]
rs10028145	0.84[AFR][1000 genomes]
rs10049984	0.98[AFR][1000 genomes]
rs12331027	0.98[AFR][1000 genomes]
rs13102608	0.84[ASN][1000 genomes]
rs13120027	0.84[ASN][1000 genomes]
rs13132028	0.84[ASN][1000 genomes]
rs13138965	0.84[ASN][1000 genomes]
rs17030522	0.84[ASN][1000 genomes]
rs17030525	0.84[ASN][1000 genomes]
rs17030528	0.84[ASN][1000 genomes]
rs17030531	0.84[ASN][1000 genomes]
rs17030534	0.84[ASN][1000 genomes]
rs17030541	0.84[ASN][1000 genomes]
rs17030548	0.84[ASN][1000 genomes]
rs17030550	0.84[ASN][1000 genomes]
rs17030551	0.84[ASN][1000 genomes]
rs17030553	0.84[ASN][1000 genomes]
rs17030554	0.84[ASN][1000 genomes]
rs17030557	0.84[ASN][1000 genomes]
rs17030560	0.84[ASN][1000 genomes]
rs17030619	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs17030636	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs28379569	0.98[AFR][1000 genomes]
rs28444682	0.84[ASN][1000 genomes]
rs28473421	0.98[AFR][1000 genomes]
rs28529062	0.98[AFR][1000 genomes]
rs28570164	0.97[AFR][1000 genomes]
rs28615165	0.98[AFR][1000 genomes]
rs28835623	0.95[AFR][1000 genomes]
rs4428287	0.84[ASN][1000 genomes]
rs59485348	0.84[ASN][1000 genomes]
rs62307686	0.84[ASN][1000 genomes]
rs6830350	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6831146	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6834999	0.89[AFR][1000 genomes]
rs6835230	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6835957	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6840437	0.84[ASN][1000 genomes]
rs6853319	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6853796	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7655125	1.00[JPT][hapmap]
rs7658024	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs7659308	0.84[ASN][1000 genomes]
rs7667871	0.84[ASN][1000 genomes]
rs7676752	0.84[ASN][1000 genomes]
rs7677279	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7677774	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7678087	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7678230	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7680583	0.94[AFR][1000 genomes]
rs9992642	0.93[AFR][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	nsv931418	chr4:101500167-102443207	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:101853200-101854400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr4:101853200-101854400	Enhancers	Colon Smooth Muscle	Colon
3	chr4:101853200-101854600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr4:101853400-101854200	Enhancers	Right Atrium	heart
5	chr4:101853400-101854400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
6	chr4:101853400-101854400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr4:101853400-101854400	Weak transcription	Brain Cingulate Gyrus	brain
8	chr4:101853400-101855000	Enhancers	Brain Angular Gyrus	brain
9	chr4:101853400-101855000	Enhancers	Brain Substantia Nigra	brain
10	chr4:101853400-101855800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr4:101853600-101854200	Weak transcription	Duodenum Mucosa	Duodenum
12	chr4:101853600-101854400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr4:101853600-101855000	Enhancers	Brain Anterior Caudate	brain
14	chr4:101853800-101854200	Enhancers	A549	lung
15	chr4:101853800-101854800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr4:101853800-101854800	Enhancers	Fetal Brain Female	brain
17	chr4:101853800-101855200	Active TSS	Brain Hippocampus Middle	brain
18	chr4:101854000-101854200	Weak transcription	NHDF-Ad	bronchial
19	chr4:101854000-101854400	Enhancers	Adipose Nuclei	Adipose
20	chr4:101854000-101854800	Active TSS	Ovary	ovary
21	chr4:101854000-101854800	Active TSS	GM12878-XiMat	blood

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