Variant report

Variant	rs11900482
Chromosome Location	chr2:100758709-100758710
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10185059	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10185510	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10197987	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10496344	1.00[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11123809	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11123810	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11123811	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs11123812	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11123813	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11679078	0.82[ASN][1000 genomes]
rs11681227	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11681966	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11682173	0.81[ASN][1000 genomes]
rs11690905	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11891046	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11899489	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11902705	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12712064	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12712065	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs12712067	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12712068	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12712071	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12987209	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12987212	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13003982	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13005282	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13019618	0.82[ASN][1000 genomes]
rs13032454	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13415465	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13415583	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1370353	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1821826	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1821827	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2009094	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2009095	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2118280	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2164712	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2309752	0.96[ASN][1000 genomes]
rs4490209	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4850920	0.82[ASN][1000 genomes]
rs4850921	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4851252	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4851253	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4851254	0.81[ASN][1000 genomes]
rs4851256	0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4851257	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56054309	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7590378	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7593261	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7608424	0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003343	chr2:100241560-100848900	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv535843	chr2:100241560-100848900	Genic enhancers Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv582530	chr2:100739970-100774287	Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Strong transcription Genic 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 lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv527481	chr2:100753490-100763006	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:100746200-100764800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr2:100753800-100759800	Flanking Active TSS	Dnd41	blood
3	chr2:100756800-100759800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr2:100757000-100759000	Active TSS	Rectal Mucosa Donor 29	rectum
5	chr2:100757400-100759000	Active TSS	Thymus	Thymus
6	chr2:100757400-100759200	Active TSS	Primary B cells from peripheral blood	blood
7	chr2:100757400-100759600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr2:100757800-100759400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
9	chr2:100758200-100758800	Active TSS	Fetal Lung	lung
10	chr2:100758200-100759000	Active TSS	Primary T helper cells PMA-I stimulated	--
11	chr2:100758200-100759000	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr2:100758200-100759000	Active TSS	Rectal Smooth Muscle	rectum
13	chr2:100758200-100759000	Flanking Active TSS	GM12878-XiMat	blood
14	chr2:100758200-100759200	Flanking Active TSS	Primary hematopoietic stem cells	blood
15	chr2:100758200-100759200	Active TSS	Primary T helper naive cells from peripheral blood	blood
16	chr2:100758200-100759200	Active TSS	Primary T regulatory cells fromperipheralblood	blood
17	chr2:100758200-100759400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
18	chr2:100758200-100759400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
19	chr2:100758200-100761600	Enhancers	Primary monocytes fromperipheralblood	blood
20	chr2:100758400-100758800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
21	chr2:100758400-100758800	Bivalent/Poised TSS	Sigmoid Colon	Sigmoid Colon
22	chr2:100758400-100758800	Active TSS	Spleen	Spleen
23	chr2:100758400-100759000	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
24	chr2:100758400-100759200	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
25	chr2:100758400-100759200	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
26	chr2:100758400-100759400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
27	chr2:100758400-100759600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
28	chr2:100758400-100759600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
29	chr2:100758600-100758800	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr2:100758600-100758800	Active TSS	Primary B cells from cord blood	blood
31	chr2:100758600-100758800	Active TSS	Duodenum Mucosa	Duodenum
32	chr2:100758600-100758800	Active TSS	Fetal Thymus	thymus
33	chr2:100758600-100759000	Active TSS	Primary T cells from cord blood	blood
34	chr2:100758600-100759000	Active TSS	Adipose Nuclei	Adipose
35	chr2:100758600-100759000	Enhancers	Esophagus	oesophagus
36	chr2:100758600-100759000	Active TSS	Fetal Muscle Leg	muscle
37	chr2:100758600-100759000	Active TSS	Small Intestine	intestine
38	chr2:100758600-100759200	Enhancers	Primary neutrophils fromperipheralblood	blood
39	chr2:100758600-100759200	Flanking Active TSS	Primary T cells fromperipheralblood	blood
40	chr2:100758600-100759200	Active TSS	Primary T killer memory cells from peripheral blood	blood

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