Variant report

Variant	rs1889485
Chromosome Location	chr10:96238324-96238325
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:96234155..96237347-chr10:96237389..96239974,3	K562	blood:
2	chr10:96202589..96204461-chr10:96236936..96238924,2	MCF-7	breast:

Extended variants
information (count: 101 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs10786168	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10786169	0.84[EUR][1000 genomes]
rs1079504	0.87[EUR][1000 genomes]
rs10882452	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10882454	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10882460	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10882463	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10882469	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10882470	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10882471	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10882473	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10882474	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10882477	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11187937	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11187938	0.81[EUR][1000 genomes]
rs11187939	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11187944	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11187948	0.83[EUR][1000 genomes]
rs11187952	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11187958	0.85[EUR][1000 genomes]
rs11187966	0.86[EUR][1000 genomes]
rs11187972	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11187973	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11187980	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11187985	0.91[AMR][1000 genomes]
rs11187996	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11188009	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11188019	0.85[EUR][1000 genomes]
rs11527881	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11592354	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12221475	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12572040	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12573638	0.80[EUR][1000 genomes]
rs12762574	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1326839	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1749352	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1749355	0.85[EUR][1000 genomes]
rs1749356	0.82[EUR][1000 genomes]
rs1854035	0.82[EUR][1000 genomes]
rs1886272	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1889486	0.85[EUR][1000 genomes]
rs1980741	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2095380	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2244241	0.85[EUR][1000 genomes]
rs2265362	0.83[EUR][1000 genomes]
rs2265364	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2274096	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2281791	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2860760	0.86[EUR][1000 genomes]
rs2901764	0.85[EUR][1000 genomes]
rs2901765	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3740358	0.83[ASN][1000 genomes]
rs3758522	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3758523	0.83[EUR][1000 genomes]
rs3781262	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4316436	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4351744	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4611135	0.83[EUR][1000 genomes]
rs4917505	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4918333	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4918402	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4918404	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs493088	0.81[EUR][1000 genomes]
rs517784	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs522111	0.83[EUR][1000 genomes]
rs541704	0.85[EUR][1000 genomes]
rs542540	0.82[EUR][1000 genomes]
rs556055	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56020662	0.86[EUR][1000 genomes]
rs576517	0.82[EUR][1000 genomes]
rs581165	0.85[EUR][1000 genomes]
rs6583943	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6583946	0.83[EUR][1000 genomes]
rs692872	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs701885	0.83[ASN][1000 genomes]
rs7073639	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7078236	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7078811	0.81[EUR][1000 genomes]
rs7079934	0.85[EUR][1000 genomes]
rs7083898	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7086462	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7087472	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7089094	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7100415	0.85[ASN][1000 genomes]
rs7393251	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7895305	0.81[EUR][1000 genomes]
rs7898330	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7906843	0.85[EUR][1000 genomes]
rs7913343	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7921721	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs8181426	0.86[EUR][1000 genomes]
rs912466	0.85[EUR][1000 genomes]
rs9420641	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs945123	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs955694	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9633675	0.82[EUR][1000 genomes]
rs9633699	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[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	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	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
3	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
4	nsv1053747	chr10:96211618-96366396	Strong transcription ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 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	chr10:96203000-96239600	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr10:96203400-96242800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr10:96204200-96243400	Weak transcription	Stomach Smooth Muscle	stomach
4	chr10:96210200-96248800	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr10:96211600-96292200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr10:96212600-96248600	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr10:96215600-96255200	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr10:96216600-96243600	Weak transcription	Brain Anterior Caudate	brain
9	chr10:96219800-96239600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr10:96219800-96242800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr10:96219800-96283400	Weak transcription	Lung	lung
12	chr10:96220000-96248800	Weak transcription	Colonic Mucosa	Colon
13	chr10:96221800-96255600	Weak transcription	Ovary	ovary
14	chr10:96222800-96255800	Weak transcription	HepG2	liver
15	chr10:96223200-96293600	Weak transcription	NHDF-Ad	bronchial
16	chr10:96223400-96240200	Weak transcription	Brain Hippocampus Middle	brain
17	chr10:96223600-96242600	Weak transcription	Fetal Muscle Leg	muscle
18	chr10:96227800-96255600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr10:96228000-96243200	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr10:96228600-96242200	Weak transcription	Brain Germinal Matrix	brain
21	chr10:96228600-96242400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr10:96230000-96243000	Weak transcription	Brain Substantia Nigra	brain
23	chr10:96230200-96242000	Weak transcription	Brain Cingulate Gyrus	brain
24	chr10:96230400-96244000	Weak transcription	Pancreas	Pancrea
25	chr10:96233600-96239800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr10:96234000-96243600	Weak transcription	Fetal Muscle Trunk	muscle
27	chr10:96234600-96239000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
28	chr10:96235000-96255200	Weak transcription	Osteobl	bone
29	chr10:96235600-96243400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr10:96236000-96248600	Weak transcription	Left Ventricle	heart
31	chr10:96236000-96254400	Weak transcription	Rectal Smooth Muscle	rectum
32	chr10:96236400-96268600	Weak transcription	HSMMtube	muscle
33	chr10:96236800-96241000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr10:96237000-96244000	Weak transcription	Aorta	Aorta
35	chr10:96237200-96243600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr10:96237400-96238400	Strong transcription	Fetal Stomach	stomach
37	chr10:96237400-96248800	Weak transcription	Brain Angular Gyrus	brain
38	chr10:96237600-96239800	Weak transcription	Small Intestine	intestine
39	chr10:96237600-96258800	Weak transcription	Monocytes-CD14+_RO01746	blood
40	chr10:96237600-96271400	Weak transcription	Placenta	Placenta
41	chr10:96237800-96241000	Weak transcription	Fetal Lung	lung
42	chr10:96238000-96239200	Enhancers	Liver	Liver
43	chr10:96238000-96239600	Weak transcription	Primary monocytes fromperipheralblood	blood
44	chr10:96238000-96240600	Weak transcription	Adipose Nuclei	Adipose
45	chr10:96238000-96241000	Weak transcription	Fetal Intestine Large	intestine
46	chr10:96238000-96243400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr10:96238200-96238400	Enhancers	Esophagus	oesophagus
48	chr10:96238200-96241000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr10:96238200-96242800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr10:96238200-96243000	Weak transcription	HSMM	muscle

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