Variant report

Variant	rs10895711
Chromosome Location	chr11:104480824-104480825
allele	C/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	SMC3	chr11:104479742-104480848	SK-N-SH	brain:	n/a	chr11:104480119-104480133
2	GATA3	chr11:104480510-104480904	T-47D	breast:	n/a	n/a
3	RAD21	chr11:104479701-104481071	SK-N-SH	brain:	n/a	chr11:104480123-104480135 chr11:104480118-104480137

Variant related genes	Relation type
ENSG00000256422	TF binding region

Extended variants
information (count: 95 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10502036	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10502037	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10502041	0.95[EUR][1000 genomes]
rs10791717	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10791719	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10791720	0.83[EUR][1000 genomes]
rs10895705	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10895706	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10895707	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10895708	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10895712	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10895713	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10895714	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10895715	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10895719	0.95[EUR][1000 genomes]
rs10895721	0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11226426	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11226428	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11226430	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11226431	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11226433	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11226439	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11226441	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11226442	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11226443	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11226445	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11226448	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11226450	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11226451	0.83[EUR][1000 genomes]
rs11226452	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11226456	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11226457	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11226459	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11226460	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11226469	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11226486	0.87[EUR][1000 genomes]
rs1147010	0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1147024	0.88[EUR][1000 genomes]
rs11601632	0.83[EUR][1000 genomes]
rs11607612	0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1200613	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1201816	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12286808	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12361024	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12364844	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12365448	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12366152	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12418899	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12799900	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12803385	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12803710	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1586464	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16894	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17102731	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17102776	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1893461	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1942502	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1942507	0.95[EUR][1000 genomes]
rs1942520	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1942521	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2156127	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2187131	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2187132	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2187135	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2226749	0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2850817	0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs34526738	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34793132	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35510904	0.81[ASN][1000 genomes]
rs55779335	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56384112	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs59832858	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61893183	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61893194	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61893228	0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs61893229	0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7119997	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs722354	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7927206	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7935104	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7939905	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9666573	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9667051	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043976	chr11:103881236-104526403	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1044271	chr11:104136156-104666252	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1046098	chr11:104207210-105003661	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv898353	chr11:104274535-104497607	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1054278	chr11:104317164-104562129	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1053886	chr11:104328822-104562129	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv1037091	chr11:104330237-104559477	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv556216	chr11:104333651-104560789	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv1048500	chr11:104348766-104548809	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv1054456	chr11:104358924-104805251	Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv531430	chr11:104380924-105194452	Genic enhancers Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
12	nsv832254	chr11:104412769-104607277	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10895711	CASP4	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:104479800-104481000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr11:104479800-104481000	Enhancers	Brain Hippocampus Middle	brain
3	chr11:104479800-104481000	Enhancers	Duodenum Smooth Muscle	Duodenum
4	chr11:104479800-104481000	Enhancers	Fetal Brain Female	brain
5	chr11:104480000-104481000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
6	chr11:104480000-104481000	Enhancers	Primary T helper cells PMA-I stimulated	--
7	chr11:104480000-104481000	Enhancers	Fetal Lung	lung
8	chr11:104480000-104481000	Enhancers	HUVEC	blood vessel
9	chr11:104480000-104481200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr11:104480000-104481200	Enhancers	Adipose Nuclei	Adipose
11	chr11:104480000-104481200	Enhancers	Aorta	Aorta
12	chr11:104480000-104481200	Enhancers	Brain Angular Gyrus	brain
13	chr11:104480000-104481200	Enhancers	Fetal Kidney	kidney
14	chr11:104480000-104481200	Enhancers	Fetal Muscle Leg	muscle
15	chr11:104480200-104481000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr11:104480200-104481000	Enhancers	Primary T cells from cord blood	blood
17	chr11:104480200-104481000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
18	chr11:104480200-104481000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
19	chr11:104480200-104481000	Enhancers	Stomach Smooth Muscle	stomach
20	chr11:104480200-104481200	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr11:104480200-104481200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
22	chr11:104480200-104481200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr11:104480200-104481200	Enhancers	Cortex derived primary cultured neurospheres	brain
24	chr11:104480200-104481200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr11:104480200-104481200	Enhancers	Brain Cingulate Gyrus	brain
26	chr11:104480200-104481200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
27	chr11:104480200-104481200	Enhancers	Fetal Brain Male	brain
28	chr11:104480400-104481000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr11:104480400-104481200	Enhancers	Colon Smooth Muscle	Colon
30	chr11:104480400-104481200	Enhancers	Fetal Stomach	stomach
31	chr11:104480400-104481200	Enhancers	Monocytes-CD14+_RO01746	blood
32	chr11:104480600-104481200	Enhancers	Ovary	ovary
33	chr11:104480600-104493000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr11:104480800-104481200	Enhancers	Rectal Mucosa Donor 29	rectum
35	chr11:104480800-104488000	Weak transcription	Dnd41	blood
36	chr11:104480800-104489400	Weak transcription	Brain Inferior Temporal Lobe	brain
37	chr11:104480800-104493200	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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