Variant report

Variant	rs57097943
Chromosome Location	chr20:1131584-1131585
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:1098102..1099832-chr20:1129647..1131844,2	MCF-7	breast:
2	chr20:1125308..1130487-chr20:1130887..1133332,4	K562	blood:

Variant related genes	Relation type
ENSG00000125818	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs55639424	1.00[AMR][1000 genomes]
rs55865140	1.00[AMR][1000 genomes]
rs56019233	1.00[AMR][1000 genomes]
rs56197289	1.00[AMR][1000 genomes]
rs56291245	1.00[AMR][1000 genomes]
rs56351112	1.00[AMR][1000 genomes]
rs56366502	1.00[AMR][1000 genomes]
rs56398212	1.00[AMR][1000 genomes]
rs56678966	1.00[AMR][1000 genomes]
rs57017494	1.00[AMR][1000 genomes]
rs57522549	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59254825	1.00[AMR][1000 genomes]
rs59587945	1.00[AMR][1000 genomes]
rs59636976	1.00[AMR][1000 genomes]
rs60701356	1.00[AMR][1000 genomes]
rs61204479	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61435577	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73890801	1.00[AMR][1000 genomes]
rs73890802	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73890809	1.00[AMR][1000 genomes]
rs73892929	1.00[AMR][1000 genomes]
rs73893155	1.00[AMR][1000 genomes]
rs73893241	1.00[AMR][1000 genomes]
rs73893603	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73893604	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73893605	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73893607	1.00[AMR][1000 genomes]
rs73893608	1.00[AMR][1000 genomes]
rs73893610	1.00[AMR][1000 genomes]
rs73893613	1.00[AMR][1000 genomes]
rs73893614	1.00[AMR][1000 genomes]
rs73893616	1.00[AMR][1000 genomes]
rs73893618	1.00[AMR][1000 genomes]
rs73893635	1.00[AMR][1000 genomes]
rs73894560	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531450	chr20:809607-1221836	Weak transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv1058524	chr20:821434-1254865	Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv544138	chr20:821434-1254865	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1057939	chr20:824980-1316778	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv1065838	chr20:866302-1147601	Genic enhancers Strong transcription Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv544139	chr20:866302-1147601	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
7	nsv1055328	chr20:867911-1145765	Genic enhancers Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
8	nsv1059611	chr20:867911-1158694	Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Active TSS Genic enhancers 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	17 gene(s)	inside rSNPs	diseases
9	nsv544140	chr20:867911-1158694	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
10	nsv949356	chr20:961527-1135413	Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
11	nsv912585	chr20:992713-1210647	Strong transcription Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
12	nsv1057097	chr20:1030940-1314265	Active TSS Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
13	esv1799982	chr20:1097289-1136252	Flanking Active TSS Genic enhancers Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
14	esv3396123	chr20:1129602-1132100	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:1100400-1132600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr20:1100400-1146600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr20:1104600-1135800	Strong transcription	Dnd41	blood
4	chr20:1112200-1137400	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr20:1112400-1154800	Strong transcription	Primary monocytes fromperipheralblood	blood
6	chr20:1113800-1135200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr20:1113800-1159000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
8	chr20:1114000-1138000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr20:1115200-1153600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr20:1115800-1137800	Strong transcription	Primary T cells fromperipheralblood	blood
11	chr20:1116000-1141400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr20:1116600-1144600	Weak transcription	Stomach Mucosa	stomach
13	chr20:1116800-1141800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr20:1117000-1141200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr20:1117000-1141600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr20:1117200-1144600	Weak transcription	Hela-S3	cervix
17	chr20:1118000-1134000	Weak transcription	HSMMtube	muscle
18	chr20:1118000-1135400	Weak transcription	Fetal Brain Male	brain
19	chr20:1118000-1135600	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr20:1120200-1133000	Weak transcription	Fetal Kidney	kidney
21	chr20:1121000-1140800	Weak transcription	K562	blood
22	chr20:1121200-1140400	Weak transcription	NH-A	brain
23	chr20:1121400-1144600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr20:1121800-1134000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
25	chr20:1121800-1141200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
26	chr20:1122400-1132800	Weak transcription	NHDF-Ad	bronchial
27	chr20:1124000-1136600	Strong transcription	Primary B cells from cord blood	blood
28	chr20:1124000-1136600	Strong transcription	Primary T cells from cord blood	blood
29	chr20:1125800-1138200	Strong transcription	Primary T helper cells PMA-I stimulated	--
30	chr20:1127200-1141200	Weak transcription	HUVEC	blood vessel
31	chr20:1127200-1143800	Weak transcription	Colon Smooth Muscle	Colon
32	chr20:1127400-1141400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr20:1127600-1134000	Weak transcription	Brain Cingulate Gyrus	brain
34	chr20:1128000-1135600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
35	chr20:1128000-1140600	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr20:1128200-1134000	Weak transcription	HSMM	muscle
37	chr20:1128200-1135200	Weak transcription	Fetal Heart	heart
38	chr20:1128200-1135600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
39	chr20:1128200-1141200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
40	chr20:1128400-1131800	Weak transcription	Primary B cells from peripheral blood	blood
41	chr20:1128400-1132800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr20:1128400-1135600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr20:1128400-1135800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
44	chr20:1128400-1140600	Weak transcription	Brain Angular Gyrus	brain
45	chr20:1128600-1131600	Weak transcription	Placenta	Placenta
46	chr20:1128600-1131600	Weak transcription	Fetal Thymus	thymus
47	chr20:1128600-1131800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr20:1128600-1131800	Weak transcription	Left Ventricle	heart
49	chr20:1128600-1131800	Weak transcription	NHEK	skin
50	chr20:1128600-1132200	Weak transcription	Brain Germinal Matrix	brain

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