Variant report

Variant	rs6563722
Chromosome Location	chr13:40108135-40108136
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1022810	0.94[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1040961	0.92[ASW][hapmap];0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.85[MEX][hapmap];0.81[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1885761	0.98[ASN][1000 genomes]
rs1885763	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1885764	0.97[ASN][1000 genomes]
rs2324333	1.00[CEU][hapmap]
rs2324335	1.00[CEU][hapmap]
rs2875329	1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs3812881	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs4304917	1.00[CEU][hapmap]
rs4325425	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs4559795	1.00[CEU][hapmap]
rs6563719	0.83[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs6563721	0.97[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs6563723	0.85[CEU][hapmap]
rs7139592	0.93[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7335390	1.00[CEU][hapmap]
rs7986879	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs7986918	1.00[CEU][hapmap]
rs7992290	0.85[CHB][hapmap]
rs8000471	1.00[CEU][hapmap]
rs9285135	0.97[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs9285136	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs9315698	0.97[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs9532393	0.85[CEU][hapmap];0.94[EUR][1000 genomes]
rs9576838	0.83[ASW][hapmap];0.91[YRI][hapmap]

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	esv2754118	chr13:39347702-40222644	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1054600	chr13:39801283-40545027	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
3	nsv1050137	chr13:40090742-40118499	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:40096800-40110400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr13:40101600-40110400	Weak transcription	Psoas Muscle	Psoas
3	chr13:40102600-40110600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr13:40102800-40110400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr13:40102800-40110800	Weak transcription	Brain Hippocampus Middle	brain
6	chr13:40102800-40111200	Weak transcription	Brain Cingulate Gyrus	brain
7	chr13:40103000-40109000	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr13:40103200-40108400	Weak transcription	Fetal Brain Female	brain
9	chr13:40103200-40110800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr13:40106000-40113200	Weak transcription	Fetal Lung	lung
11	chr13:40106200-40109000	Weak transcription	Adipose Nuclei	Adipose
12	chr13:40106200-40109200	Weak transcription	Fetal Heart	heart
13	chr13:40106200-40110400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr13:40106200-40110800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr13:40106200-40113200	Weak transcription	Colon Smooth Muscle	Colon
16	chr13:40106400-40110200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr13:40106400-40110400	Weak transcription	Left Ventricle	heart
18	chr13:40106400-40110400	Weak transcription	Right Atrium	heart
19	chr13:40106400-40110400	Weak transcription	Right Ventricle	heart
20	chr13:40106400-40110400	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr13:40106400-40110800	Weak transcription	NHLF	lung
22	chr13:40106400-40111400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr13:40106400-40113400	Weak transcription	HSMM	muscle
24	chr13:40106400-40113600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr13:40106400-40116600	Weak transcription	Fetal Muscle Leg	muscle
26	chr13:40106600-40109000	Weak transcription	Osteobl	bone
27	chr13:40106600-40110400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr13:40106600-40110600	Weak transcription	NHEK	skin
29	chr13:40106600-40113400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr13:40106600-40117400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr13:40106800-40108600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr13:40106800-40124000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr13:40107200-40109000	Weak transcription	NHDF-Ad	bronchial
34	chr13:40107600-40108200	Enhancers	Ovary	ovary
35	chr13:40107600-40108600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr13:40107800-40109400	Enhancers	Fetal Brain Male	brain
37	chr13:40107800-40140200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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