Variant report

Variant	rs10890879
Chromosome Location	chr11:108545808-108545809
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:108544356..108546638-chr11:108547388..108548983,2	K562	blood:
2	chr11:108535825..108537691-chr11:108545574..108549379,3	K562	blood:

Variant related genes	Relation type
ENSG00000178105	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10749923	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10749926	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10749927	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10749928	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10749929	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.88[EUR][1000 genomes]
rs10789675	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10789676	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10789677	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10789678	1.00[CEU][hapmap];0.87[CHB][hapmap];0.87[JPT][hapmap];0.94[EUR][1000 genomes]
rs10789680	0.95[CEU][hapmap];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10789681	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes]
rs10789682	1.00[CEU][hapmap];0.86[CHB][hapmap];0.92[EUR][1000 genomes]
rs10789683	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10789685	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10789688	1.00[CEU][hapmap];0.87[CHB][hapmap];0.88[CHD][hapmap];0.89[GIH][hapmap];0.94[LWK][hapmap];0.98[TSI][hapmap];0.84[EUR][1000 genomes]
rs10890877	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10890883	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10890888	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10890889	0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10890893	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10890894	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10890895	1.00[CEU][hapmap];0.82[CHB][hapmap];0.90[EUR][1000 genomes]
rs10890897	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs10890898	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.86[EUR][1000 genomes]
rs10890899	1.00[CEU][hapmap];0.87[CHB][hapmap];0.83[EUR][1000 genomes]
rs10890901	0.82[EUR][1000 genomes]
rs10890902	0.84[EUR][1000 genomes]
rs10890903	0.84[EUR][1000 genomes]
rs11212750	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11212771	1.00[CEU][hapmap];0.91[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11212774	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11212797	0.81[EUR][1000 genomes]
rs11212802	0.83[EUR][1000 genomes]
rs11530525	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12420572	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.98[TSI][hapmap];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1824664	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1824665	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1863366	0.83[EUR][1000 genomes]
rs2169562	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2306118	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.98[TSI][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3781864	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3781866	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3781867	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3902843	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4027488	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4237580	0.88[EUR][1000 genomes]
rs4497371	0.82[EUR][1000 genomes]
rs4753849	1.00[CEU][hapmap];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4753852	0.85[EUR][1000 genomes]
rs4754354	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4754357	0.83[EUR][1000 genomes]
rs4754358	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes]
rs4754359	0.85[EUR][1000 genomes]
rs61912810	0.82[EUR][1000 genomes]
rs7103086	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7116062	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7940595	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs890237	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1052254	chr11:108122683-108845008	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv541164	chr11:108122683-108845008	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats 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 miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv898386	chr11:108409442-108831875	Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv898388	chr11:108440814-108724639	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv832264	chr11:108449613-108623720	ZNF genes & repeats Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:108536600-108578400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr11:108536800-108546400	Weak transcription	Thymus	Thymus
3	chr11:108536800-108547400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr11:108536800-108547600	Weak transcription	Colonic Mucosa	Colon
5	chr11:108536800-108548400	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr11:108536800-108549800	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr11:108537000-108546200	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr11:108537000-108546200	Weak transcription	Fetal Kidney	kidney
9	chr11:108537200-108546600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr11:108537400-108546000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr11:108537400-108546000	Weak transcription	Placenta	Placenta
12	chr11:108537400-108546000	Weak transcription	Fetal Thymus	thymus
13	chr11:108537400-108546400	Weak transcription	Lung	lung
14	chr11:108537600-108546000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr11:108537600-108546000	Weak transcription	Left Ventricle	heart
16	chr11:108537600-108546200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr11:108537800-108546000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr11:108537800-108546000	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr11:108537800-108546000	Weak transcription	Esophagus	oesophagus
20	chr11:108537800-108546000	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr11:108537800-108546200	Weak transcription	Brain Substantia Nigra	brain
22	chr11:108537800-108546200	Weak transcription	Gastric	stomach
23	chr11:108537800-108547800	Weak transcription	Fetal Brain Male	brain
24	chr11:108537800-108549800	Weak transcription	A549	lung
25	chr11:108537800-108560200	Weak transcription	Small Intestine	intestine
26	chr11:108538000-108546000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr11:108538000-108547600	Weak transcription	Brain Anterior Caudate	brain
28	chr11:108538200-108547600	Weak transcription	Brain Hippocampus Middle	brain
29	chr11:108538200-108574800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
30	chr11:108538400-108547800	Weak transcription	Brain Cingulate Gyrus	brain
31	chr11:108538600-108547800	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr11:108538600-108548800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr11:108538600-108550600	Weak transcription	Stomach Mucosa	stomach
34	chr11:108538800-108546000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr11:108538800-108546000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr11:108538800-108547600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
37	chr11:108538800-108547800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
38	chr11:108539400-108546000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr11:108540200-108546000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
40	chr11:108540200-108546000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr11:108540400-108546000	Weak transcription	Right Ventricle	heart
42	chr11:108540400-108547800	Weak transcription	Hela-S3	cervix
43	chr11:108540400-108560600	Weak transcription	Pancreas	Pancrea
44	chr11:108540800-108546000	Weak transcription	Primary B cells from cord blood	blood
45	chr11:108540800-108546200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr11:108540800-108546200	Weak transcription	HepG2	liver
47	chr11:108541200-108546200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
48	chr11:108541400-108546000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr11:108541400-108546000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr11:108541400-108546400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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