Variant report

Variant	rs73343076
Chromosome Location	chr20:25273724-25273725
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr20:25271217-25273748	PANC-1	pancreas:	n/a	n/a
2	POLR2A	chr20:25270585-25278923	Hela-S3	cervix:	n/a	n/a
3	POLR2A	chr20:25270332-25278907	A549	lung:	n/a	n/a
4	POLR2A	chr20:25273492-25273740	PFSK-1	brain:	n/a	n/a

Variant related genes	Relation type
PYGB	TF binding region

Extended variants
information (count: 171 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:153)

rs_ID	r²[population]
rs11907515	0.83[EUR][1000 genomes]
rs12106059	1.00[AMR][1000 genomes]
rs12373881	1.00[AMR][1000 genomes]
rs2067793	0.83[EUR][1000 genomes]
rs2145125	0.83[EUR][1000 genomes]
rs2180596	0.83[EUR][1000 genomes]
rs2180597	0.83[EUR][1000 genomes]
rs2228978	0.83[EUR][1000 genomes]
rs2387734	0.83[EUR][1000 genomes]
rs28435893	1.00[AMR][1000 genomes]
rs28496800	0.83[EUR][1000 genomes]
rs28551104	1.00[AMR][1000 genomes]
rs28770021	0.83[EUR][1000 genomes]
rs28881233	0.83[EUR][1000 genomes]
rs34299454	0.83[EUR][1000 genomes]
rs35073849	1.00[AMR][1000 genomes]
rs41282340	0.83[EUR][1000 genomes]
rs41304802	0.83[EUR][1000 genomes]
rs41308633	0.83[EUR][1000 genomes]
rs56795563	1.00[AMR][1000 genomes]
rs57237389	1.00[AMR][1000 genomes]
rs57405931	0.83[EUR][1000 genomes]
rs57522322	1.00[AMR][1000 genomes]
rs58189090	1.00[AMR][1000 genomes]
rs58410604	1.00[AMR][1000 genomes]
rs58412968	1.00[EUR][1000 genomes]
rs58593226	1.00[AMR][1000 genomes]
rs58709664	1.00[AMR][1000 genomes]
rs58722006	1.00[AMR][1000 genomes]
rs58953621	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59082275	1.00[EUR][1000 genomes]
rs59362331	1.00[AMR][1000 genomes]
rs59431257	1.00[AMR][1000 genomes]
rs59857017	1.00[AMR][1000 genomes]
rs6037061	0.83[EUR][1000 genomes]
rs6037064	0.83[EUR][1000 genomes]
rs6037068	0.83[EUR][1000 genomes]
rs6037070	0.83[EUR][1000 genomes]
rs6037071	0.83[EUR][1000 genomes]
rs6037073	0.83[EUR][1000 genomes]
rs6037075	0.83[EUR][1000 genomes]
rs60459445	1.00[AMR][1000 genomes]
rs60479943	1.00[AMR][1000 genomes]
rs6050449	0.83[EUR][1000 genomes]
rs6050451	0.83[EUR][1000 genomes]
rs6050457	0.83[EUR][1000 genomes]
rs6050458	0.83[EUR][1000 genomes]
rs6050461	0.83[EUR][1000 genomes]
rs6050462	0.83[EUR][1000 genomes]
rs6050465	0.83[EUR][1000 genomes]
rs6050473	0.83[EUR][1000 genomes]
rs6050474	0.83[EUR][1000 genomes]
rs6050476	0.83[EUR][1000 genomes]
rs6050478	0.83[EUR][1000 genomes]
rs6050486	0.83[EUR][1000 genomes]
rs6050487	0.83[EUR][1000 genomes]
rs6050488	0.83[EUR][1000 genomes]
rs6050490	0.83[EUR][1000 genomes]
rs6050492	0.83[EUR][1000 genomes]
rs6050493	0.83[EUR][1000 genomes]
rs6050494	0.83[EUR][1000 genomes]
rs6050502	0.83[EUR][1000 genomes]
rs6050503	0.83[EUR][1000 genomes]
rs6050504	0.83[EUR][1000 genomes]
rs6050507	0.83[EUR][1000 genomes]
rs6050508	0.83[EUR][1000 genomes]
rs6050509	0.83[EUR][1000 genomes]
rs6050510	0.83[EUR][1000 genomes]
rs6050511	0.83[EUR][1000 genomes]
rs60758360	1.00[AMR][1000 genomes]
rs60831246	1.00[AMR][1000 genomes]
rs60834749	1.00[AMR][1000 genomes]
rs60893899	1.00[AMR][1000 genomes]
rs7263527	0.83[EUR][1000 genomes]
rs7264066	1.00[AMR][1000 genomes]
rs7267807	1.00[AMR][1000 genomes]
rs7269045	0.83[EUR][1000 genomes]
rs7270324	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7273544	0.83[EUR][1000 genomes]
rs7274585	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7274919	1.00[EUR][1000 genomes]
rs73331819	1.00[AMR][1000 genomes]
rs73331822	1.00[AMR][1000 genomes]
rs73331824	1.00[AMR][1000 genomes]
rs73331833	1.00[AMR][1000 genomes]
rs73331834	1.00[AMR][1000 genomes]
rs73331856	1.00[AMR][1000 genomes]
rs73331880	1.00[AMR][1000 genomes]
rs73331881	1.00[AMR][1000 genomes]
rs73333506	1.00[AMR][1000 genomes]
rs73333515	1.00[AMR][1000 genomes]
rs73333541	1.00[AMR][1000 genomes]
rs73333553	1.00[AMR][1000 genomes]
rs73333583	1.00[AMR][1000 genomes]
rs73333590	1.00[AMR][1000 genomes]
rs73335304	1.00[AMR][1000 genomes]
rs73335306	1.00[AMR][1000 genomes]
rs73335318	1.00[AMR][1000 genomes]
rs73335323	1.00[AMR][1000 genomes]
rs73339096	1.00[AMR][1000 genomes]
rs73339099	1.00[AMR][1000 genomes]
rs73339100	1.00[AMR][1000 genomes]
rs73341103	1.00[AMR][1000 genomes]
rs73341112	1.00[AMR][1000 genomes]
rs73341114	1.00[AMR][1000 genomes]
rs73341120	1.00[AMR][1000 genomes]
rs73341122	1.00[AMR][1000 genomes]
rs73341124	1.00[AMR][1000 genomes]
rs73341128	1.00[AMR][1000 genomes]
rs73341131	1.00[AMR][1000 genomes]
rs73341135	1.00[AMR][1000 genomes]
rs73341140	1.00[AMR][1000 genomes]
rs73341143	1.00[AMR][1000 genomes]
rs73341155	1.00[AMR][1000 genomes]
rs73341157	1.00[AMR][1000 genomes]
rs73341171	1.00[AMR][1000 genomes]
rs73343010	1.00[AMR][1000 genomes]
rs73343043	1.00[AMR][1000 genomes]
rs73343050	1.00[AMR][1000 genomes]
rs73343053	1.00[AMR][1000 genomes]
rs73343058	1.00[AMR][1000 genomes]
rs73343090	1.00[AMR][1000 genomes]
rs73343097	1.00[AMR][1000 genomes]
rs73345003	1.00[AMR][1000 genomes]
rs73345011	1.00[AMR][1000 genomes]
rs73345016	1.00[AMR][1000 genomes]
rs73345021	1.00[AMR][1000 genomes]
rs73345030	1.00[AMR][1000 genomes]
rs73345040	1.00[AMR][1000 genomes]
rs73345068	1.00[AMR][1000 genomes]
rs73345069	1.00[AMR][1000 genomes]
rs73345071	1.00[AMR][1000 genomes]
rs73345073	1.00[AMR][1000 genomes]
rs73345082	1.00[AMR][1000 genomes]
rs73345087	1.00[AMR][1000 genomes]
rs73345088	1.00[AMR][1000 genomes]
rs73347016	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73347023	1.00[AMR][1000 genomes]
rs73347042	1.00[AMR][1000 genomes]
rs73347058	1.00[AMR][1000 genomes]
rs73347066	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7344105	0.83[EUR][1000 genomes]
rs736358	0.83[EUR][1000 genomes]
rs8115188	1.00[AMR][1000 genomes]
rs8116564	0.83[EUR][1000 genomes]
rs8117413	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs8118017	1.00[AMR][1000 genomes]
rs8118763	0.83[EUR][1000 genomes]
rs8120268	0.83[EUR][1000 genomes]
rs8120601	1.00[AMR][1000 genomes]
rs8123947	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8125980	0.83[EUR][1000 genomes]
rs9967947	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 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
18	nsv912827	chr20:25271326-25288632	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 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	chr20:25247600-25277400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr20:25249000-25280200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr20:25249200-25274800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr20:25249200-25275000	Strong transcription	A549	lung
7	chr20:25249200-25285800	Strong transcription	Dnd41	blood
8	chr20:25249400-25274600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr20:25249400-25274800	Strong transcription	Osteobl	bone
10	chr20:25249400-25276200	Strong transcription	Fetal Intestine Large	intestine
11	chr20:25249600-25274400	Strong transcription	Lung	lung
12	chr20:25249600-25274600	Strong transcription	Primary T cells from cord blood	blood
13	chr20:25249600-25274600	Strong transcription	Duodenum Mucosa	Duodenum
14	chr20:25249600-25274800	Strong transcription	Primary T helper cells fromperipheralblood	blood
15	chr20:25249600-25275000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr20:25249600-25275000	Strong transcription	Cortex derived primary cultured neurospheres	brain
17	chr20:25249600-25275000	Strong transcription	NHLF	lung
18	chr20:25249600-25275200	Strong transcription	Rectal Mucosa Donor 29	rectum
19	chr20:25249600-25279000	Strong transcription	Sigmoid Colon	Sigmoid Colon
20	chr20:25249600-25279400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr20:25249600-25284800	Strong transcription	Primary monocytes fromperipheralblood	blood
22	chr20:25249600-25285200	Strong transcription	Monocytes-CD14+_RO01746	blood
23	chr20:25249800-25274000	Strong transcription	HUES6 Cell Line	embryonic stem cell
24	chr20:25249800-25274600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
25	chr20:25249800-25274600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr20:25249800-25275000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr20:25249800-25275200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr20:25249800-25275200	Strong transcription	Fetal Stomach	stomach
29	chr20:25249800-25276400	Strong transcription	Fetal Intestine Small	intestine
30	chr20:25249800-25284400	Strong transcription	Brain Germinal Matrix	brain
31	chr20:25250000-25274800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
32	chr20:25250000-25274800	Strong transcription	Placenta Amnion	Placenta Amnion
33	chr20:25250000-25275800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr20:25250600-25276200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr20:25250800-25285000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr20:25251400-25275400	Strong transcription	Thymus	Thymus
37	chr20:25252200-25276400	Weak transcription	Hela-S3	cervix
38	chr20:25253800-25273800	Strong transcription	Duodenum Smooth Muscle	Duodenum
39	chr20:25254000-25276200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr20:25254200-25274600	Weak transcription	Psoas Muscle	Psoas
41	chr20:25254200-25275000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr20:25254400-25287800	Weak transcription	K562	blood
43	chr20:25255200-25273800	Strong transcription	Rectal Smooth Muscle	rectum
44	chr20:25255400-25274800	Strong transcription	Adipose Nuclei	Adipose
45	chr20:25255600-25279200	Strong transcription	Fetal Brain Female	brain
46	chr20:25255800-25290000	Weak transcription	Small Intestine	intestine
47	chr20:25256000-25299400	Weak transcription	Fetal Brain Male	brain
48	chr20:25256200-25274800	Strong transcription	Brain Cingulate Gyrus	brain
49	chr20:25256600-25275000	Strong transcription	Fetal Thymus	thymus
50	chr20:25258800-25274800	Strong transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links