Variant report

Variant	rs12116841
Chromosome Location	chr1:95163726-95163727
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 110 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs10218699	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10218700	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10218701	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10493877	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10782990	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10782991	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10874879	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10874880	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10874881	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10874882	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10874883	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10874884	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11165209	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11165210	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11165211	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11165212	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11165215	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11165217	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11165218	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11165219	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11165220	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11165221	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12085094	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12089652	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12117807	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12120217	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12127717	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12128735	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12138432	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12145601	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12409876	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12409905	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12409906	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12725936	0.85[AMR][1000 genomes]
rs12736683	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12739283	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12739612	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12739646	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12740172	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12743410	0.85[AMR][1000 genomes]
rs12750395	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12756850	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12756853	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12757140	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12757198	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12757945	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12758342	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12760023	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12760228	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12760666	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1493275	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1493276	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1493277	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1772893	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1778190	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1873878	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1891871	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1994850	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2040074	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2040075	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2040076	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2040077	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2391384	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2391385	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2391387	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2893273	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3956597	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4000655	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4000656	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4000657	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4000658	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4240958	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4240959	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4240960	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4274076	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4319342	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4338361	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4394665	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4567290	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4598496	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4847337	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4847338	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4847339	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4847340	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4847341	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4847342	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4847343	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4847344	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4847345	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs61773231	0.81[ASN][1000 genomes]
rs6663811	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7412205	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7416454	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7546581	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7546594	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7546688	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs841340	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs841359	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs841361	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs841362	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs841366	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs859337	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs865779	0.81[EUR][1000 genomes]
rs923815	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs964213	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][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	nsv1001587	chr1:95027691-95318680	Weak transcription Strong transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
2	nsv871001	chr1:95128546-95171891	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv871916	chr1:95143999-95189230	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv437228	chr1:95146564-95164436	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1001043	chr1:95158042-95185906	Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:95126800-95164200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr1:95142800-95167800	Weak transcription	Pancreas	Pancrea
3	chr1:95151400-95165800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr1:95152800-95195000	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr1:95153000-95173000	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr1:95153400-95167600	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr1:95155800-95173200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr1:95160200-95163800	Weak transcription	Fetal Intestine Small	intestine
9	chr1:95160200-95166400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr1:95160400-95167800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr1:95162600-95163800	Enhancers	HepG2	liver
12	chr1:95162800-95165200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr1:95163200-95163800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
14	chr1:95163200-95164400	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr1:95163200-95164800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr1:95163200-95165000	Enhancers	NH-A	brain
17	chr1:95163200-95165000	Enhancers	NHLF	lung
18	chr1:95163200-95165200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr1:95163200-95165800	Enhancers	Fetal Intestine Large	intestine
20	chr1:95163200-95169000	Enhancers	NHDF-Ad	bronchial
21	chr1:95163400-95163800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr1:95163400-95164000	Enhancers	A549	lung
23	chr1:95163400-95164400	Enhancers	HUES48 Cell Line	embryonic stem cell
24	chr1:95163400-95164600	Enhancers	ES-I3 Cell Line	embryonic stem cell
25	chr1:95163400-95165000	Enhancers	Hela-S3	cervix
26	chr1:95163400-95165200	Enhancers	Osteobl	bone
27	chr1:95163400-95166000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr1:95163600-95164000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr1:95163600-95164200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr1:95163600-95164400	Enhancers	iPS-15b Cell Line	embryonic stem cell
31	chr1:95163600-95164400	Enhancers	Stomach Mucosa	stomach
32	chr1:95163600-95164400	Enhancers	HSMM	muscle
33	chr1:95163600-95164600	Enhancers	HUES6 Cell Line	embryonic stem cell
34	chr1:95163600-95164600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr1:95163600-95165000	Enhancers	Muscle Satellite Cultured Cells	--
36	chr1:95163600-95165000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr1:95163600-95166200	Enhancers	Placenta Amnion	Placenta Amnion

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