Variant report

Variant	rs11123809
Chromosome Location	chr2:100758137-100758138
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10185059	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10185510	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10197987	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10496344	0.92[CEU][hapmap];0.82[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11123810	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11123811	1.00[CHB][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs11123812	0.93[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11123813	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11679078	0.81[ASN][1000 genomes]
rs11681227	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11681966	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11682173	0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs11690905	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11891046	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11899489	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11900482	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11902705	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12712064	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12712065	1.00[CHB][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs12712066	0.93[YRI][hapmap];0.90[AFR][1000 genomes]
rs12712067	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12712068	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12712071	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12987209	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12987212	0.92[CEU][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13003982	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13005282	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13019618	0.81[ASN][1000 genomes]
rs13032454	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13415465	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13415583	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1370353	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1821826	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1821827	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2009094	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2009095	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2118280	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2164712	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2309752	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4490209	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4850920	0.81[ASN][1000 genomes]
rs4850921	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4851252	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4851253	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4851254	0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs4851256	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4851257	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56054309	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7590378	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7593261	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[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:28 , 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	chr2:100747200-100758400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr2:100752600-100758200	Enhancers	Primary hematopoietic stem cells short term culture	blood
4	chr2:100753000-100758400	Weak transcription	Spleen	Spleen
5	chr2:100753600-100758200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
6	chr2:100753800-100759800	Flanking Active TSS	Dnd41	blood
7	chr2:100754000-100758200	Enhancers	Primary T helper naive cells from peripheral blood	blood
8	chr2:100754400-100758400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr2:100754400-100758400	Enhancers	Monocytes-CD14+_RO01746	blood
10	chr2:100754800-100758400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr2:100754800-100758400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr2:100755000-100758400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr2:100755600-100758400	Weak transcription	Primary T cells fromperipheralblood	blood
14	chr2:100756600-100758400	Active TSS	Primary Natural Killer cells fromperipheralblood	blood
15	chr2:100756800-100759800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr2:100757000-100759000	Active TSS	Rectal Mucosa Donor 29	rectum
17	chr2:100757400-100758200	Active TSS	GM12878-XiMat	blood
18	chr2:100757400-100758600	Flanking Active TSS	Primary T cells from cord blood	blood
19	chr2:100757400-100759000	Active TSS	Thymus	Thymus
20	chr2:100757400-100759200	Active TSS	Primary B cells from peripheral blood	blood
21	chr2:100757400-100759600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr2:100757600-100758400	Active TSS	Fetal Thymus	thymus
23	chr2:100757800-100758200	Weak transcription	Primary monocytes fromperipheralblood	blood
24	chr2:100757800-100758200	Active TSS	Primary hematopoietic stem cells	blood
25	chr2:100757800-100758200	Weak transcription	Primary T helper cells PMA-I stimulated	--
26	chr2:100757800-100758200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr2:100757800-100759400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
28	chr2:100758000-100758200	Flanking Active TSS	Primary B cells from cord blood	blood

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