Variant report

Variant	rs2459740
Chromosome Location	chr12:43192832-43192833
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 124 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:121)

rs_ID	r²[population]
rs1009431	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11181692	0.91[EUR][1000 genomes]
rs11181693	0.91[EUR][1000 genomes]
rs11181694	0.89[EUR][1000 genomes]
rs11181695	0.89[EUR][1000 genomes]
rs11181696	0.89[EUR][1000 genomes]
rs12227600	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1400811	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1400814	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1517666	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1517667	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1517670	1.00[EUR][1000 genomes]
rs1517671	1.00[EUR][1000 genomes]
rs1517672	1.00[EUR][1000 genomes]
rs1554248	1.00[EUR][1000 genomes]
rs1554249	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1554250	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1554251	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1554252	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1607249	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17091970	1.00[EUR][1000 genomes]
rs17092061	0.90[EUR][1000 genomes]
rs1878577	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1878579	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1878580	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2037238	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2056192	0.97[EUR][1000 genomes]
rs2056193	0.90[ASN][1000 genomes]
rs2056196	0.98[EUR][1000 genomes]
rs2138862	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2252129	0.87[EUR][1000 genomes]
rs2252131	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2255231	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2255712	1.00[EUR][1000 genomes]
rs2255713	1.00[EUR][1000 genomes]
rs2407112	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2407113	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2459736	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2459738	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2459739	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2459741	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2459742	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2459743	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2468321	1.00[EUR][1000 genomes]
rs2468322	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2468324	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2468325	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2468326	1.00[EUR][1000 genomes]
rs2468327	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2678102	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2678103	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2678104	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2678105	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2678108	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2678109	0.95[EUR][1000 genomes]
rs2678110	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2678111	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2678112	0.93[EUR][1000 genomes]
rs2678113	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2678117	0.90[ASN][1000 genomes]
rs2678119	0.90[ASN][1000 genomes]
rs2678132	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2678134	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2678135	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2678136	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2678137	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2678141	0.98[EUR][1000 genomes]
rs2678143	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2678144	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2678145	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2678146	1.00[EUR][1000 genomes]
rs2678147	1.00[EUR][1000 genomes]
rs2678148	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2678149	1.00[EUR][1000 genomes]
rs2678151	1.00[EUR][1000 genomes]
rs2678152	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2678153	1.00[EUR][1000 genomes]
rs2730965	1.00[EUR][1000 genomes]
rs2730966	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2730967	1.00[EUR][1000 genomes]
rs2730968	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2730969	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2730970	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2730976	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2730977	1.00[EUR][1000 genomes]
rs2730980	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2730991	0.90[ASN][1000 genomes]
rs2730997	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2730998	1.00[EUR][1000 genomes]
rs2730999	1.00[EUR][1000 genomes]
rs2731000	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2731002	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2731003	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2731004	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2731010	0.93[EUR][1000 genomes]
rs2731015	0.93[EUR][1000 genomes]
rs2731016	0.93[EUR][1000 genomes]
rs2731017	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2956457	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35204519	0.93[EUR][1000 genomes]
rs73130905	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7314719	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7962735	0.91[EUR][1000 genomes]
rs7976494	0.91[EUR][1000 genomes]
rs7976690	0.91[EUR][1000 genomes]
rs908656	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs908657	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs908658	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs908660	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs908661	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs908662	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs908663	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs908666	0.89[EUR][1000 genomes]
rs952054	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs952056	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9651992	0.89[EUR][1000 genomes]
rs973001	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs975540	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9788178	0.91[EUR][1000 genomes]
rs981248	1.00[EUR][1000 genomes]
rs991703	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044790	chr12:42672255-43344184	Enhancers Bivalent Enhancer Strong transcription Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	29 gene(s)	inside rSNPs	diseases
2	nsv541483	chr12:42672255-43344184	Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	29 gene(s)	inside rSNPs	diseases
3	nsv558749	chr12:43180190-43275097	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:43185200-43193000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr12:43189200-43196200	Weak transcription	NHDF-Ad	bronchial
3	chr12:43192000-43193400	Enhancers	NH-A	brain
4	chr12:43192200-43193200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr12:43192200-43193400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr12:43192200-43193400	Enhancers	HSMM	muscle
7	chr12:43192200-43193400	Enhancers	HSMMtube	muscle
8	chr12:43192200-43193600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr12:43192400-43193400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr12:43192400-43193400	Enhancers	Muscle Satellite Cultured Cells	--
11	chr12:43192400-43193400	Enhancers	Osteobl	bone
12	chr12:43192600-43193200	Enhancers	HMEC	breast
13	chr12:43192600-43193400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr12:43192600-43193600	Enhancers	Fetal Heart	heart
15	chr12:43192800-43193200	Active TSS	Breast Myoepithelial Primary Cells	Breast
16	chr12:43192800-43193200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr12:43192800-43193200	Enhancers	Placenta Amnion	Placenta Amnion
18	chr12:43192800-43193400	Enhancers	Skeletal Muscle Male	skeletal muscle
19	chr12:43192800-43193400	Enhancers	Skeletal Muscle Female	skeletal muscle

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