Variant report

Variant	rs41308633
Chromosome Location	chr20:25289389-25289390
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 80 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11907515	1.00[EUR][1000 genomes]
rs2067793	1.00[EUR][1000 genomes]
rs2145125	1.00[EUR][1000 genomes]
rs2180596	1.00[EUR][1000 genomes]
rs2180597	1.00[EUR][1000 genomes]
rs2228978	1.00[EUR][1000 genomes]
rs2387734	1.00[EUR][1000 genomes]
rs28496800	1.00[EUR][1000 genomes]
rs28770021	1.00[EUR][1000 genomes]
rs28881233	1.00[EUR][1000 genomes]
rs34299454	1.00[EUR][1000 genomes]
rs41282340	1.00[EUR][1000 genomes]
rs41304802	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs58412968	0.83[EUR][1000 genomes]
rs58953621	0.83[EUR][1000 genomes]
rs59082275	0.83[EUR][1000 genomes]
rs6037061	1.00[EUR][1000 genomes]
rs6037064	1.00[EUR][1000 genomes]
rs6037068	1.00[EUR][1000 genomes]
rs6037070	1.00[EUR][1000 genomes]
rs6037071	1.00[EUR][1000 genomes]
rs6037073	1.00[EUR][1000 genomes]
rs6037075	1.00[EUR][1000 genomes]
rs6050449	1.00[EUR][1000 genomes]
rs6050451	1.00[EUR][1000 genomes]
rs6050457	1.00[EUR][1000 genomes]
rs6050458	1.00[EUR][1000 genomes]
rs6050461	1.00[EUR][1000 genomes]
rs6050462	1.00[EUR][1000 genomes]
rs6050465	1.00[EUR][1000 genomes]
rs6050473	1.00[EUR][1000 genomes]
rs6050474	1.00[EUR][1000 genomes]
rs6050476	1.00[EUR][1000 genomes]
rs6050478	1.00[EUR][1000 genomes]
rs6050486	1.00[EUR][1000 genomes]
rs6050487	1.00[EUR][1000 genomes]
rs6050488	1.00[EUR][1000 genomes]
rs6050490	1.00[EUR][1000 genomes]
rs6050492	1.00[EUR][1000 genomes]
rs6050493	1.00[EUR][1000 genomes]
rs6050494	1.00[EUR][1000 genomes]
rs6050502	1.00[EUR][1000 genomes]
rs6050503	1.00[EUR][1000 genomes]
rs6050504	1.00[EUR][1000 genomes]
rs6050507	1.00[EUR][1000 genomes]
rs6050508	1.00[EUR][1000 genomes]
rs6050509	1.00[EUR][1000 genomes]
rs6050510	1.00[EUR][1000 genomes]
rs6050511	1.00[EUR][1000 genomes]
rs7263527	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7269045	1.00[EUR][1000 genomes]
rs7273544	1.00[EUR][1000 genomes]
rs7274919	0.83[EUR][1000 genomes]
rs73343076	0.83[EUR][1000 genomes]
rs73347016	0.83[EUR][1000 genomes]
rs73347066	0.83[EUR][1000 genomes]
rs7344105	1.00[EUR][1000 genomes]
rs736358	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8116564	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8118763	1.00[EUR][1000 genomes]
rs8120268	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8123947	0.83[EUR][1000 genomes]
rs8125980	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1062140	chr20:24807962-25304054	Strong transcription Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv544219	chr20:24807962-25304054	Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv1055341	chr20:24848416-25302271	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
4	nsv1063494	chr20:25067286-25468557	Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
5	nsv1063016	chr20:25067286-25475629	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
6	nsv1065101	chr20:25068046-25466542	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
7	nsv544220	chr20:25068046-25466542	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
8	nsv531480	chr20:25070067-25472684	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
9	nsv585746	chr20:25071454-25470056	Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
10	nsv1062742	chr20:25071454-25475629	Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
11	nsv949389	chr20:25071454-25506582	Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
12	nsv531481	chr20:25080583-25448944	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
13	nsv949479	chr20:25096494-25467359	Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
14	nsv1061109	chr20:25101715-25472685	Enhancers Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
15	nsv544221	chr20:25101715-25472685	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
16	nsv833948	chr20:25231726-25410540	Strong transcription Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
17	esv1798601	chr20:25250122-25305949	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:25230400-25291600	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr20:25235600-25291200	Weak transcription	Fetal Kidney	kidney
3	chr20:25255800-25290000	Weak transcription	Small Intestine	intestine
4	chr20:25256000-25299400	Weak transcription	Fetal Brain Male	brain
5	chr20:25259000-25290800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr20:25261600-25291000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr20:25266600-25291200	Weak transcription	Primary B cells from cord blood	blood
8	chr20:25267000-25291200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr20:25271400-25290600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr20:25271600-25291200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr20:25275600-25290400	Strong transcription	Fetal Stomach	stomach
12	chr20:25275800-25290600	Strong transcription	Thymus	Thymus
13	chr20:25277600-25289800	Weak transcription	HSMMtube	muscle
14	chr20:25277600-25291000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr20:25277800-25290000	Weak transcription	HUVEC	blood vessel
16	chr20:25278400-25289600	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr20:25278400-25290200	Weak transcription	Rectal Smooth Muscle	rectum
18	chr20:25278800-25305600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr20:25279800-25290000	Weak transcription	Colon Smooth Muscle	Colon
20	chr20:25280000-25290600	Weak transcription	Primary hematopoietic stem cells	blood
21	chr20:25281200-25289400	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr20:25281200-25289400	Weak transcription	NHDF-Ad	bronchial
23	chr20:25281400-25289400	Weak transcription	HSMM	muscle
24	chr20:25282200-25289800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr20:25282600-25290000	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr20:25282600-25290600	Weak transcription	Right Atrium	heart
27	chr20:25282800-25289800	Weak transcription	NHEK	skin
28	chr20:25282800-25290600	Weak transcription	Primary B cells from peripheral blood	blood
29	chr20:25283000-25289600	Weak transcription	HMEC	breast
30	chr20:25283000-25291200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr20:25284000-25291000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr20:25284200-25289800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr20:25284400-25289400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr20:25284600-25289600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr20:25284600-25290800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr20:25284600-25304000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr20:25285000-25289400	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr20:25285000-25289600	Weak transcription	Brain Substantia Nigra	brain
39	chr20:25285000-25290000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr20:25285000-25290200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr20:25285000-25290400	Weak transcription	Duodenum Smooth Muscle	Duodenum
42	chr20:25285200-25289400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr20:25285200-25291000	Weak transcription	Aorta	Aorta
44	chr20:25285600-25291600	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr20:25285800-25290600	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr20:25286600-25289800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr20:25286600-25290200	Strong transcription	Pancreas	Pancrea
48	chr20:25286800-25292200	Strong transcription	Dnd41	blood
49	chr20:25287000-25289600	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr20:25287000-25289600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links