Variant report

Variant	rs6841563
Chromosome Location	chr4:110533673-110533674
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10004265	0.93[EUR][1000 genomes]
rs10017233	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10027051	0.93[EUR][1000 genomes]
rs12500353	0.93[EUR][1000 genomes]
rs12511564	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13116996	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs149772	0.89[ASN][1000 genomes]
rs183192	0.92[ASN][1000 genomes]
rs197202	0.88[ASN][1000 genomes]
rs197205	0.93[EUR][1000 genomes]
rs197208	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs197210	0.89[EUR][1000 genomes]
rs197211	0.93[EUR][1000 genomes]
rs197212	0.93[EUR][1000 genomes]
rs197214	0.93[EUR][1000 genomes]
rs197215	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs197217	0.93[EUR][1000 genomes]
rs197227	0.93[EUR][1000 genomes]
rs197232	0.92[ASN][1000 genomes]
rs197234	0.92[ASN][1000 genomes]
rs197236	0.86[ASN][1000 genomes]
rs197237	0.84[ASN][1000 genomes]
rs6533437	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6533439	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6533440	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6810719	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6810809	0.93[EUR][1000 genomes]
rs6811858	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6818852	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6827415	0.83[AMR][1000 genomes]
rs6832174	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6841003	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9993676	0.92[EUR][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	nsv461613	chr4:109922064-110593460	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv595129	chr4:109922064-110593460	Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	esv3349784	chr4:110348873-110723163	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	esv3419480	chr4:110521397-110549622	Genic enhancers Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110530800-110535600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr4:110531000-110546000	Weak transcription	Esophagus	oesophagus
3	chr4:110531000-110550600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr4:110531400-110535200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr4:110531400-110546000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr4:110531400-110546000	Weak transcription	Spleen	Spleen
7	chr4:110531600-110543800	Weak transcription	Primary T cells fromperipheralblood	blood
8	chr4:110531600-110543800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr4:110531600-110545000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr4:110531600-110546000	Weak transcription	Thymus	Thymus
11	chr4:110531600-110549600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr4:110531800-110543800	Weak transcription	Fetal Thymus	thymus
13	chr4:110532000-110535200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr4:110532000-110537600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr4:110532600-110534600	Weak transcription	Primary T cells from cord blood	blood
16	chr4:110532600-110535000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr4:110532600-110537000	Weak transcription	Primary T helper cells fromperipheralblood	blood
18	chr4:110532600-110545800	Weak transcription	Primary hematopoietic stem cells	blood
19	chr4:110532800-110534400	Weak transcription	Primary B cells from peripheral blood	blood
20	chr4:110532800-110534600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
21	chr4:110532800-110546000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr4:110533000-110535000	Weak transcription	HepG2	liver
23	chr4:110533000-110573000	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr4:110533200-110534400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr4:110533200-110534400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr4:110533200-110535800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr4:110533400-110534400	Weak transcription	Primary T helper cells PMA-I stimulated	--
28	chr4:110533400-110552800	Weak transcription	Primary B cells from cord blood	blood

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