Variant report

Variant	rs11903729
Chromosome Location	chr2:32253322-32253323
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	chr2:32253263-32253342	MCF-7	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr2:32234654..32237365-chr2:32251622..32254458,2	MCF-7	breast:
2	chr2:32246352..32249151-chr2:32252266..32253794,2	K562	blood:
3	chr2:32247651..32249272-chr2:32252294..32254325,2	K562	blood:

Variant related genes	Relation type
DPY30	TF binding region
ENSG00000162959	Chromatin interaction
ENSG00000162961	Chromatin interaction

Extended variants
information (count: 151 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:149)

rs_ID	r²[population]
rs1005460	0.85[CHB][hapmap];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1011309	0.86[ASN][1000 genomes]
rs10153899	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10490358	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10490359	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11124273	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11884169	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11887441	1.00[CEU][hapmap]
rs11890763	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11893435	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11897154	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11898765	0.85[EUR][1000 genomes]
rs11899296	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11901415	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12712325	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12988908	0.82[ASN][1000 genomes]
rs12990358	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12992916	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs12993413	0.88[EUR][1000 genomes]
rs12993808	0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12994708	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12994869	0.85[CEU][hapmap];0.86[CHB][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12997171	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[ASN][1000 genomes]
rs13003695	0.80[ASN][1000 genomes]
rs13005816	1.00[CEU][hapmap];0.86[CHB][hapmap];0.88[EUR][1000 genomes]
rs13006751	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13007025	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13013099	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13014501	0.81[EUR][1000 genomes]
rs13018592	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13021718	0.85[ASN][1000 genomes]
rs13022518	0.85[EUR][1000 genomes]
rs13022696	1.00[CEU][hapmap];0.86[CHB][hapmap];0.81[ASN][1000 genomes]
rs13022719	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13024535	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13028676	0.88[EUR][1000 genomes]
rs13034714	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13034933	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13409437	0.85[ASN][1000 genomes]
rs13414295	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs160802	0.85[ASN][1000 genomes]
rs17011641	0.82[EUR][1000 genomes]
rs17011644	0.81[ASN][1000 genomes]
rs17011673	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17011697	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17011710	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17011711	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17011721	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17011722	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17011740	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17011742	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17818002	1.00[CEU][hapmap];0.86[CHB][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1808112	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2064814	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs33998544	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34056419	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34077616	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34231321	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34316760	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34321580	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34369001	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34432107	0.85[EUR][1000 genomes]
rs34437462	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34457675	0.90[EUR][1000 genomes]
rs34460762	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34492168	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34497289	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34540872	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs34569213	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34617455	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34645083	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34738692	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34776070	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34805211	0.82[EUR][1000 genomes]
rs34897620	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34970173	0.82[ASN][1000 genomes]
rs34973007	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs35178826	0.85[ASN][1000 genomes]
rs35179884	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35262968	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35382589	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35397112	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35404750	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35502701	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35514510	0.82[ASN][1000 genomes]
rs35631143	0.81[EUR][1000 genomes]
rs36048738	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3754837	1.00[CEU][hapmap];0.86[CHB][hapmap];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3769607	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs3769614	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3795922	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3851309	0.86[CHB][hapmap]
rs56821465	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60954094	0.95[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs62142074	0.84[ASN][1000 genomes]
rs62142076	0.85[ASN][1000 genomes]
rs6543643	0.82[ASN][1000 genomes]
rs6543644	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6543645	0.83[ASN][1000 genomes]
rs66511526	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs66522244	0.85[ASN][1000 genomes]
rs66735346	0.82[ASN][1000 genomes]
rs66863308	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs66949767	0.82[EUR][1000 genomes]
rs67048620	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6712798	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6718407	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6721692	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6729580	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs67335141	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6733630	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6736930	0.88[EUR][1000 genomes]
rs6739654	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6746749	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67493880	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs67517941	0.85[EUR][1000 genomes]
rs67550529	0.83[ASN][1000 genomes]
rs67557317	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6755740	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6757121	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs6761760	0.81[EUR][1000 genomes]
rs6761878	0.88[EUR][1000 genomes]
rs67780569	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs67957236	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs68039196	0.81[EUR][1000 genomes]
rs68051012	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs68076008	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs71446027	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs71446035	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs71446042	0.81[EUR][1000 genomes]
rs72859088	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72860906	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72860941	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72860982	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72861000	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7559329	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs7560472	1.00[CEU][hapmap];0.86[CHB][hapmap];0.87[EUR][1000 genomes]
rs7560714	0.87[EUR][1000 genomes]
rs7562388	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7574910	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7577579	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7580118	1.00[CHB][hapmap]
rs7587341	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7591270	1.00[CEU][hapmap];0.86[CHB][hapmap];0.85[ASN][1000 genomes]
rs7598154	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs7601038	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7607030	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7607225	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs875167	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532648	chr2:31591498-32312698	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats 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	39 gene(s)	inside rSNPs	diseases
2	nsv949102	chr2:32030307-33011548	Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	71 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	chr2:32236400-32264200	Weak transcription	Gastric	stomach
2	chr2:32236600-32253400	Weak transcription	Esophagus	oesophagus
3	chr2:32236600-32261000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr2:32236600-32263200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr2:32236600-32263800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr2:32236600-32263800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr2:32236600-32263800	Weak transcription	Psoas Muscle	Psoas
8	chr2:32236600-32264200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr2:32236600-32264200	Weak transcription	Right Atrium	heart
10	chr2:32236600-32264200	Weak transcription	Right Ventricle	heart
11	chr2:32236800-32258800	Weak transcription	Fetal Kidney	kidney
12	chr2:32236800-32263000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr2:32236800-32263800	Weak transcription	Small Intestine	intestine
14	chr2:32236800-32264000	Weak transcription	Brain Angular Gyrus	brain
15	chr2:32236800-32264000	Weak transcription	Fetal Heart	heart
16	chr2:32236800-32264000	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr2:32236800-32264000	Weak transcription	HSMMtube	muscle
18	chr2:32237000-32259600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr2:32237000-32262000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr2:32237000-32263600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr2:32237000-32263800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr2:32237000-32263800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
23	chr2:32237400-32264000	Weak transcription	GM12878-XiMat	blood
24	chr2:32238800-32258800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
25	chr2:32240000-32254000	Strong transcription	Fetal Intestine Large	intestine
26	chr2:32240400-32254000	Strong transcription	Fetal Muscle Trunk	muscle
27	chr2:32240800-32255600	Strong transcription	Fetal Muscle Leg	muscle
28	chr2:32240800-32260200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr2:32241000-32254600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
30	chr2:32241400-32255400	Strong transcription	HUES48 Cell Line	embryonic stem cell
31	chr2:32241400-32255400	Strong transcription	HUES64 Cell Line	embryonic stem cell
32	chr2:32242600-32254400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr2:32242600-32254800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
34	chr2:32243400-32259200	Weak transcription	Hela-S3	cervix
35	chr2:32243800-32254400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr2:32244200-32254800	Strong transcription	Liver	Liver
37	chr2:32244600-32263600	Weak transcription	NHEK	skin
38	chr2:32245600-32264200	Weak transcription	Aorta	Aorta
39	chr2:32246000-32263200	Weak transcription	Pancreas	Pancrea
40	chr2:32246800-32255800	Strong transcription	Primary T cells fromperipheralblood	blood
41	chr2:32247000-32255200	Strong transcription	Primary monocytes fromperipheralblood	blood
42	chr2:32247200-32254800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
43	chr2:32247400-32254600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr2:32247600-32255200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
45	chr2:32247600-32255800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr2:32247600-32256000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr2:32247800-32254000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
48	chr2:32247800-32254800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr2:32247800-32255200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr2:32247800-32255200	Strong transcription	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links