Variant report

Variant	rs17023773
Chromosome Location	chr2:39596806-39596807
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:39596692..39599194-chr2:39603552..39605779,2	K562	blood:

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

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10199459	0.97[EUR][1000 genomes]
rs11124683	0.92[EUR][1000 genomes]
rs11884949	0.92[ASN][1000 genomes]
rs11896389	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12328714	0.91[EUR][1000 genomes]
rs17023530	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17023542	0.82[CEU][hapmap];1.00[CHB][hapmap];0.82[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17023547	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17023600	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17023611	0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17023640	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs17023684	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17023696	0.82[CEU][hapmap];0.82[CHB][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17446102	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17446515	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17446690	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17505580	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17505877	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2056653	0.97[EUR][1000 genomes]
rs2056655	0.97[EUR][1000 genomes]
rs2111383	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2373532	0.82[CEU][hapmap];0.97[EUR][1000 genomes]
rs3732052	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4670273	0.97[EUR][1000 genomes]
rs4670938	0.81[GIH][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes]
rs4670940	0.82[JPT][hapmap]
rs55761128	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6544227	0.94[EUR][1000 genomes]
rs6544229	0.97[EUR][1000 genomes]
rs6720537	0.90[GIH][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes]
rs6720951	0.90[GIH][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes]
rs6721740	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6731310	0.82[EUR][1000 genomes]
rs6758596	0.90[GIH][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes]
rs73924009	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7559436	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7577097	1.00[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7605939	0.90[GIH][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010874	chr2:39255376-39604535	Strong transcription Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
2	nsv535649	chr2:39255376-39604535	Weak transcription Enhancers Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
3	nsv531346	chr2:39263225-39606367	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
4	nsv1009379	chr2:39271472-39604535	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
5	nsv581494	chr2:39277851-39626388	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats 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	37 gene(s)	inside rSNPs	diseases
6	esv1827292	chr2:39385155-39675339	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
7	esv1812828	chr2:39396457-39675339	Flanking Active TSS Strong transcription Active TSS Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
8	nsv833847	chr2:39410762-39604640	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
9	nsv533445	chr2:39412970-39605266	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats 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	10 gene(s)	inside rSNPs	diseases
10	nsv873887	chr2:39468676-39601889	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
11	nsv997934	chr2:39473548-39751029	Enhancers Strong transcription ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS 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	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:39572200-39597600	Weak transcription	Osteobl	bone
2	chr2:39584400-39598400	Weak transcription	Colon Smooth Muscle	Colon
3	chr2:39584400-39604600	Weak transcription	Right Ventricle	heart
4	chr2:39587000-39597000	Weak transcription	NHLF	lung
5	chr2:39587000-39608800	Weak transcription	Pancreas	Pancrea
6	chr2:39587200-39604400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr2:39587800-39604800	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr2:39588000-39607800	Weak transcription	Ovary	ovary
9	chr2:39588000-39608800	Weak transcription	Lung	lung
10	chr2:39588000-39609000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr2:39588000-39630400	Weak transcription	Placenta	Placenta
12	chr2:39588200-39599800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr2:39588200-39602800	Weak transcription	Duodenum Mucosa	Duodenum
14	chr2:39588200-39603000	Weak transcription	Adipose Nuclei	Adipose
15	chr2:39588400-39603000	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr2:39588600-39599400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr2:39590000-39597000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr2:39590000-39604800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr2:39590200-39597000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr2:39590200-39597200	Weak transcription	NHDF-Ad	bronchial
21	chr2:39590200-39597400	Weak transcription	NHEK	skin
22	chr2:39590200-39598200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr2:39590200-39598400	Weak transcription	Fetal Lung	lung
24	chr2:39590200-39599800	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr2:39590200-39602800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr2:39590200-39602800	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr2:39590200-39604800	Weak transcription	HSMMtube	muscle
28	chr2:39590400-39598200	Weak transcription	Primary B cells from cord blood	blood
29	chr2:39590400-39599800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
30	chr2:39590400-39600400	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr2:39590400-39602400	Weak transcription	Liver	Liver
32	chr2:39590600-39598200	Weak transcription	Fetal Intestine Large	intestine
33	chr2:39590600-39598200	Weak transcription	HSMM	muscle
34	chr2:39590600-39598400	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr2:39590600-39598600	Weak transcription	Fetal Muscle Leg	muscle
36	chr2:39590600-39601000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr2:39590600-39601200	Weak transcription	Fetal Stomach	stomach
38	chr2:39590600-39602200	Weak transcription	Fetal Muscle Trunk	muscle
39	chr2:39591000-39602000	Weak transcription	Fetal Thymus	thymus
40	chr2:39591800-39602200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
41	chr2:39591800-39604600	Weak transcription	NH-A	brain
42	chr2:39591800-39621400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
43	chr2:39592000-39606800	Weak transcription	Stomach Smooth Muscle	stomach
44	chr2:39592200-39599800	Weak transcription	Rectal Smooth Muscle	rectum
45	chr2:39592400-39599800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr2:39592400-39600200	Weak transcription	A549	lung
47	chr2:39592400-39604600	Weak transcription	Fetal Heart	heart
48	chr2:39592600-39607000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
49	chr2:39592800-39617600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr2:39593000-39597200	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell

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