Variant report

Variant	rs12509285
Chromosome Location	chr4:142377152-142377153
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs10519602	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12501765	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12506151	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12507564	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12507887	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12508511	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12508590	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12509822	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12510810	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12511786	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12511918	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12511983	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13105639	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13113365	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13117984	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13119177	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13129076	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13130612	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13131082	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13133795	0.94[EUR][1000 genomes]
rs13147873	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1357158	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1402811	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1402812	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1436510	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1521760	0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1521765	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1521766	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1554477	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1581387	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1581388	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1581390	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1608019	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17007301	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17354547	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17354568	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1949667	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2090878	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2103007	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2103008	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2322181	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34132448	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34147541	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34422514	0.80[EUR][1000 genomes]
rs34585213	0.86[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs34761999	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34963107	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35114853	0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35251884	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35486128	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35815487	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35881750	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35898699	0.82[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs36043837	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4530710	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4956295	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4956297	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4956301	0.80[EUR][1000 genomes]
rs4956302	0.80[EUR][1000 genomes]
rs4956380	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4956384	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4956389	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4956396	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4956399	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55726691	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55912825	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56029027	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56051122	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56074428	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56140725	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56155233	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60008610	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62326572	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62326579	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62326617	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs68056864	0.82[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs6810477	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6812950	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6816897	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6818965	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6825913	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6826356	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6829748	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6831141	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6838410	0.89[EUR][1000 genomes]
rs6842807	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6845550	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6852094	0.96[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs6858423	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7671408	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7677830	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9761396	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880172	chr4:142355535-142565089	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv880173	chr4:142355535-142666106	Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:142374800-142378000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr4:142376000-142377400	Enhancers	NHEK	skin
3	chr4:142376400-142377200	Enhancers	HMEC	breast
4	chr4:142376600-142377200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr4:142376600-142377400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr4:142376600-142377400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr4:142376800-142377200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr4:142376800-142377200	Enhancers	Muscle Satellite Cultured Cells	--
9	chr4:142376800-142377200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr4:142376800-142377200	Enhancers	HSMMtube	muscle
11	chr4:142377000-142377400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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