Variant report

Variant	rs59366271
Chromosome Location	chr20:25523497-25523498
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11087514	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28565216	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28714346	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35054550	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57273246	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57365695	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57734297	1.00[AMR][1000 genomes]
rs57956383	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58167480	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58476027	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59002519	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59124158	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59444992	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59512557	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs59802545	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59813927	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59846731	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59887855	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59894298	1.00[AMR][1000 genomes]
rs60054780	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60505561	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61170040	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61416782	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7261761	1.00[AMR][1000 genomes]
rs7264886	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7265940	1.00[AMR][1000 genomes]
rs7266057	1.00[AMR][1000 genomes]
rs7272899	1.00[AMR][1000 genomes]
rs8124309	0.83[AMR][1000 genomes]
rs8126155	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1067379	chr20:25355484-25593240	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats 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	24 gene(s)	inside rSNPs	diseases
2	nsv1060591	chr20:25388781-25628750	ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer 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	nsv544223	chr20:25388781-25628750	ZNF genes & repeats Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1067441	chr20:25397566-25615439	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
5	nsv912828	chr20:25433015-25595175	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv1062452	chr20:25438025-25590278	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv1066066	chr20:25439367-25588016	Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv544224	chr20:25439367-25588016	Genic enhancers ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv912829	chr20:25444242-25595175	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
10	nsv912830	chr20:25449945-25595175	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
11	nsv912831	chr20:25449945-25595868	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
12	nsv994976	chr20:25466406-25593286	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
13	nsv534623	chr20:25466406-25593296	Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
14	nsv1062765	chr20:25466482-25556751	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
15	nsv544225	chr20:25466482-25556751	Genic enhancers Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
16	esv2762069	chr20:25506582-25619528	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:25498200-25532200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr20:25517800-25554600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr20:25518800-25524400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr20:25518800-25530200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr20:25519400-25524000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr20:25520000-25532000	Weak transcription	Dnd41	blood
7	chr20:25520200-25529000	Weak transcription	Stomach Mucosa	stomach
8	chr20:25520400-25525000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr20:25520600-25527400	Weak transcription	Lung	lung
10	chr20:25520600-25528800	Weak transcription	Gastric	stomach
11	chr20:25520800-25524200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr20:25520800-25524800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr20:25521000-25530200	Weak transcription	Brain Germinal Matrix	brain
14	chr20:25521200-25529200	Weak transcription	Placenta	Placenta
15	chr20:25521200-25530600	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr20:25521400-25523800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr20:25521400-25523800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr20:25521400-25523800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr20:25521400-25523800	Weak transcription	Fetal Muscle Trunk	muscle
20	chr20:25521400-25524000	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr20:25521400-25524000	Weak transcription	Esophagus	oesophagus
22	chr20:25521400-25524800	Weak transcription	Fetal Kidney	kidney
23	chr20:25521400-25525000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr20:25521400-25525000	Enhancers	Muscle Satellite Cultured Cells	--
25	chr20:25521400-25525000	Weak transcription	Brain Substantia Nigra	brain
26	chr20:25521400-25525000	Weak transcription	Fetal Heart	heart
27	chr20:25521400-25525000	Weak transcription	Fetal Muscle Leg	muscle
28	chr20:25521400-25525200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
29	chr20:25521400-25525200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr20:25521400-25525200	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr20:25521400-25525200	Weak transcription	Brain Anterior Caudate	brain
32	chr20:25521400-25525200	Weak transcription	Fetal Stomach	stomach
33	chr20:25521400-25525400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr20:25521400-25525800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr20:25521400-25525800	Weak transcription	Brain Hippocampus Middle	brain
36	chr20:25521400-25525800	Enhancers	Osteobl	bone
37	chr20:25521400-25529200	Weak transcription	Ovary	ovary
38	chr20:25521400-25530000	Weak transcription	HSMM	muscle
39	chr20:25521400-25532200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr20:25521400-25534200	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr20:25521600-25523800	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr20:25521600-25523800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr20:25521600-25523800	Weak transcription	HMEC	breast
44	chr20:25521600-25525000	Weak transcription	Stomach Smooth Muscle	stomach
45	chr20:25521600-25526000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr20:25521600-25530200	Weak transcription	Rectal Mucosa Donor 31	rectum
47	chr20:25521600-25565000	Weak transcription	Aorta	Aorta
48	chr20:25521800-25525200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr20:25522000-25524800	Weak transcription	H1 Cell Line	embryonic stem cell
50	chr20:25522000-25524800	Weak transcription	Fetal Brain Female	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links