Variant report

Variant	rs4239710
Chromosome Location	chr20:13698006-13698007
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs2094652	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2327796	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2423754	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs243917	1.00[EUR][1000 genomes]
rs34901599	1.00[AMR][1000 genomes]
rs4814255	1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4814257	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6033822	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6042326	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6042334	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6042344	1.00[AMR][1000 genomes]
rs6074639	1.00[ASW][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6079175	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6109967	1.00[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1061303	chr20:13395546-13810990	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv916202	chr20:13421724-14043615	Flanking Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv1059817	chr20:13422602-13807968	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1066810	chr20:13451869-14432454	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv1061323	chr20:13551004-13746346	Strong transcription ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv912689	chr20:13570331-14155881	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
7	nsv531478	chr20:13580524-13814797	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv1059221	chr20:13589432-13977327	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
9	nsv531479	chr20:13632491-14434432	Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
10	esv1793063	chr20:13691562-13708788	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:13690600-13706200	Weak transcription	Pancreas	Pancrea
2	chr20:13691800-13699000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr20:13691800-13706200	Weak transcription	Aorta	Aorta
4	chr20:13691800-13708000	Weak transcription	Fetal Brain Male	brain
5	chr20:13692200-13698800	Strong transcription	HUES64 Cell Line	embryonic stem cell
6	chr20:13692200-13699800	Strong transcription	A549	lung
7	chr20:13692200-13709200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr20:13692200-13712200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr20:13692200-13712400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr20:13692200-13745000	Weak transcription	Small Intestine	intestine
11	chr20:13692400-13698600	Strong transcription	Fetal Muscle Trunk	muscle
12	chr20:13692400-13712400	Weak transcription	Brain Germinal Matrix	brain
13	chr20:13692400-13717600	Strong transcription	Dnd41	blood
14	chr20:13692600-13699200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr20:13692800-13698200	Strong transcription	Adipose Nuclei	Adipose
16	chr20:13692800-13698400	Strong transcription	Liver	Liver
17	chr20:13692800-13698400	Strong transcription	Skeletal Muscle Female	skeletal muscle
18	chr20:13692800-13699200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr20:13692800-13699600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
20	chr20:13692800-13699800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr20:13692800-13702200	Strong transcription	Monocytes-CD14+_RO01746	blood
22	chr20:13692800-13702400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr20:13692800-13702600	Strong transcription	Primary T helper cells fromperipheralblood	blood
24	chr20:13692800-13712200	Weak transcription	Esophagus	oesophagus
25	chr20:13693000-13721400	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr20:13693000-13746400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr20:13693400-13706800	Weak transcription	K562	blood
28	chr20:13693600-13699200	Strong transcription	Fetal Muscle Leg	muscle
29	chr20:13693800-13698400	Strong transcription	Left Ventricle	heart
30	chr20:13693800-13698600	Strong transcription	HUES6 Cell Line	embryonic stem cell
31	chr20:13694000-13698200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
32	chr20:13694000-13698400	Strong transcription	Primary monocytes fromperipheralblood	blood
33	chr20:13694000-13698400	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
34	chr20:13694000-13698400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr20:13694000-13698800	Strong transcription	H1 Cell Line	embryonic stem cell
36	chr20:13694000-13698800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr20:13694000-13699200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
38	chr20:13694000-13699200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr20:13694000-13699200	Strong transcription	Duodenum Mucosa	Duodenum
40	chr20:13694200-13698200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr20:13694200-13698400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr20:13694200-13698400	Strong transcription	Osteobl	bone
43	chr20:13694200-13698600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr20:13694200-13698600	Strong transcription	Rectal Mucosa Donor 29	rectum
45	chr20:13694200-13699000	Strong transcription	Cortex derived primary cultured neurospheres	brain
46	chr20:13694200-13699600	Strong transcription	Rectal Mucosa Donor 31	rectum
47	chr20:13694200-13702400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr20:13694200-13702400	Strong transcription	HepG2	liver
49	chr20:13694200-13704200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr20:13694400-13698200	Strong transcription	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links