Variant report

Variant	rs1749352
Chromosome Location	chr10:96166928-96166929
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:96162320..96165263-chr10:96165537..96170524,5	K562	blood:
2	chr10:96138954..96141946-chr10:96166423..96169292,2	MCF-7	breast:
3	chr10:96161032..96163641-chr10:96165276..96169974,4	MCF-7	breast:
4	chr10:96161925..96164221-chr10:96166006..96168495,5	MCF-7	breast:
5	chr10:96146940..96149241-chr10:96165094..96167503,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000108239	Chromatin interaction

Extended variants
information (count: 96 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs10786168	0.82[EUR][1000 genomes]
rs10786169	0.82[EUR][1000 genomes]
rs1079504	0.83[EUR][1000 genomes]
rs10882452	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10882454	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10882460	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10882463	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10882469	0.88[EUR][1000 genomes]
rs10882471	0.89[EUR][1000 genomes]
rs10882473	0.86[EUR][1000 genomes]
rs10882474	0.83[EUR][1000 genomes]
rs10882477	0.82[EUR][1000 genomes]
rs11187937	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11187938	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11187939	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11187944	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11187948	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11187952	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11187958	0.81[EUR][1000 genomes]
rs11187966	0.82[EUR][1000 genomes]
rs11187972	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11187973	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11187980	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11187996	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11188009	0.83[EUR][1000 genomes]
rs11188019	0.82[EUR][1000 genomes]
rs11527881	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11592354	0.90[EUR][1000 genomes]
rs12221475	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12572040	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12762574	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1326839	0.80[EUR][1000 genomes]
rs1749355	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1749356	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1854035	0.80[EUR][1000 genomes]
rs1886272	0.85[EUR][1000 genomes]
rs1889485	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1889486	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1980741	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2095380	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2244241	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2265362	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2265364	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2274096	0.82[EUR][1000 genomes]
rs2281791	0.86[EUR][1000 genomes]
rs2860760	0.82[EUR][1000 genomes]
rs2901764	0.81[EUR][1000 genomes]
rs2901765	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3758523	0.81[EUR][1000 genomes]
rs3781262	0.81[EUR][1000 genomes]
rs4351744	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4611135	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs479664	0.81[EUR][1000 genomes]
rs4917505	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4918333	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4918402	0.82[EUR][1000 genomes]
rs4918404	0.82[EUR][1000 genomes]
rs493088	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs517784	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs522111	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs541704	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs542540	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs555782	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs556055	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56020662	0.82[EUR][1000 genomes]
rs576517	0.84[EUR][1000 genomes]
rs581165	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6583943	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6583946	0.81[EUR][1000 genomes]
rs692872	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7073639	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7078236	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7079934	0.83[EUR][1000 genomes]
rs7083898	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7086462	0.81[EUR][1000 genomes]
rs7089094	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7895305	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7898330	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7906843	0.83[EUR][1000 genomes]
rs7913343	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7921721	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs8181426	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs912466	0.81[EUR][1000 genomes]
rs9420641	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs945123	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs955694	0.82[EUR][1000 genomes]
rs9633699	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2761616	chr10:95966768-96303701	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv831946	chr10:96055190-96226438	Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv497859	chr10:96058024-97027747	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	esv1819509	chr10:96064300-96361776	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
5	esv3398177	chr10:96139011-96169931	Flanking Bivalent TSS/Enh Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
6	esv3411992	chr10:96139011-96172041	Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
7	esv1801044	chr10:96162545-96170593	Enhancers Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
8	esv1815355	chr10:96162545-96189900	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
9	esv1817623	chr10:96162545-96189900	Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96163800-96184400	Weak transcription	Gastric	stomach
2	chr10:96164000-96171400	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr10:96164200-96168400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr10:96164200-96168800	Weak transcription	Small Intestine	intestine
5	chr10:96164200-96172800	Weak transcription	Colon Smooth Muscle	Colon
6	chr10:96164200-96173200	Weak transcription	Ovary	ovary
7	chr10:96164400-96168800	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr10:96164600-96169000	Weak transcription	Fetal Muscle Trunk	muscle
9	chr10:96164600-96169200	Weak transcription	Brain Germinal Matrix	brain
10	chr10:96164600-96171400	Weak transcription	Fetal Stomach	stomach
11	chr10:96164600-96172200	Weak transcription	Fetal Kidney	kidney
12	chr10:96164600-96180000	Weak transcription	Fetal Intestine Small	intestine
13	chr10:96164800-96167000	Weak transcription	Pancreas	Pancrea
14	chr10:96164800-96167800	Enhancers	Psoas Muscle	Psoas
15	chr10:96164800-96168200	Enhancers	HepG2	liver
16	chr10:96164800-96171200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr10:96164800-96171400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr10:96164800-96172600	Weak transcription	Stomach Mucosa	stomach
19	chr10:96164800-96182400	Weak transcription	Lung	lung
20	chr10:96164800-96188200	Weak transcription	Right Atrium	heart
21	chr10:96165000-96167600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr10:96165000-96168200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr10:96165000-96168800	Enhancers	Brain Inferior Temporal Lobe	brain
24	chr10:96165000-96169200	Weak transcription	Fetal Brain Male	brain
25	chr10:96165000-96170800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr10:96165000-96171200	Weak transcription	Placenta	Placenta
27	chr10:96165000-96172800	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr10:96165200-96169000	Enhancers	Brain Hippocampus Middle	brain
29	chr10:96165400-96167600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr10:96165400-96168400	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr10:96165400-96168600	Weak transcription	Fetal Lung	lung
32	chr10:96165400-96175800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr10:96165600-96167400	Weak transcription	NHDF-Ad	bronchial
34	chr10:96165600-96168000	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr10:96165600-96168200	Weak transcription	Osteobl	bone
36	chr10:96165600-96168800	Weak transcription	NH-A	brain
37	chr10:96165600-96170200	Weak transcription	Liver	Liver
38	chr10:96165600-96172000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr10:96165600-96172000	Weak transcription	Rectal Mucosa Donor 29	rectum
40	chr10:96165600-96180600	Weak transcription	Left Ventricle	heart
41	chr10:96166000-96168800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr10:96166400-96167800	Enhancers	Breast Myoepithelial Primary Cells	Breast
43	chr10:96166400-96168600	Enhancers	Brain Cingulate Gyrus	brain
44	chr10:96166400-96169400	Enhancers	Brain Angular Gyrus	brain
45	chr10:96166400-96172800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr10:96166400-96173200	Weak transcription	Skeletal Muscle Female	skeletal muscle
47	chr10:96166600-96167800	Weak transcription	GM12878-XiMat	blood
48	chr10:96166600-96168600	Weak transcription	HSMM	muscle
49	chr10:96166600-96168800	Enhancers	Brain Anterior Caudate	brain
50	chr10:96166600-96171600	Enhancers	Brain Substantia Nigra	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links