Variant report

Variant	rs6675889
Chromosome Location	chr1:152213066-152213067
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 140 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:136)

rs_ID	r²[population]
rs10749669	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10749670	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10788828	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10788831	0.89[ASN][1000 genomes]
rs10888466	0.81[EUR][1000 genomes]
rs10888467	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10888468	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10888470	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10888471	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10888473	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10888475	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10888476	0.92[ASN][1000 genomes]
rs10888477	0.88[ASN][1000 genomes]
rs10888478	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11204933	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11204937	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11204938	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11204939	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11204944	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11204945	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11204947	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11204948	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11204949	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs11204951	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11204952	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11204956	0.83[ASN][1000 genomes]
rs11204976	0.84[ASN][1000 genomes]
rs11204980	0.81[ASN][1000 genomes]
rs11204981	0.81[ASN][1000 genomes]
rs11485508	0.83[ASN][1000 genomes]
rs11584340	0.82[ASN][1000 genomes]
rs11588174	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11589532	0.86[EUR][1000 genomes]
rs12027807	0.82[ASN][1000 genomes]
rs12027899	0.86[ASN][1000 genomes]
rs12032307	0.81[ASN][1000 genomes]
rs12045492	0.86[ASN][1000 genomes]
rs12045496	0.86[ASN][1000 genomes]
rs12047544	0.83[AMR][1000 genomes]
rs12063165	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12065368	0.85[ASN][1000 genomes]
rs12117911	0.81[EUR][1000 genomes]
rs12409762	0.86[EUR][1000 genomes]
rs12409802	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12567463	0.85[EUR][1000 genomes]
rs12730241	0.84[ASN][1000 genomes]
rs12748016	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12749966	0.80[EUR][1000 genomes]
rs1353436	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1390485	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1390487	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1390488	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1466757	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1496050	0.81[EUR][1000 genomes]
rs1496051	0.81[EUR][1000 genomes]
rs1552992	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1552993	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1552995	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1552996	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17596572	0.82[ASN][1000 genomes]
rs1845791	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1858479	0.81[ASN][1000 genomes]
rs1969019	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2132418	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2184950	0.84[ASN][1000 genomes]
rs2184951	0.84[ASN][1000 genomes]
rs2291770	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2338430	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2338431	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2879174	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3126055	0.81[ASN][1000 genomes]
rs3126056	0.80[ASN][1000 genomes]
rs3126058	0.84[ASN][1000 genomes]
rs3126060	0.84[ASN][1000 genomes]
rs3126062	0.84[ASN][1000 genomes]
rs34188926	0.81[ASN][1000 genomes]
rs36033453	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs41267154	0.82[ASN][1000 genomes]
rs4256811	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4326625	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4341364	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4361987	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4415568	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4421596	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4456097	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4456098	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4466659	0.88[ASN][1000 genomes]
rs4511111	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4511113	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4845421	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4845426	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4845428	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4845430	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4845431	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4845733	0.81[EUR][1000 genomes]
rs4845734	0.82[EUR][1000 genomes]
rs4845736	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4845740	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4845741	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4845742	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4845744	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4845745	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4845750	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4845751	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4845752	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4845753	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55957623	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6587647	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6587651	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6587652	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6587666	0.81[ASN][1000 genomes]
rs6662450	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6666382	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6670891	0.86[ASN][1000 genomes]
rs6676012	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6678951	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6681433	0.82[ASN][1000 genomes]
rs6681457	0.81[ASN][1000 genomes]
rs6692010	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs74127901	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7520249	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7531094	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7533529	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7534716	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7535078	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7535536	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7536879	0.86[ASN][1000 genomes]
rs7537637	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7540844	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7543541	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7550106	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs868303	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs868304	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs877776	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9436062	0.82[ASN][1000 genomes]
rs991231	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv1007097	chr1:151832796-152227977	Strong transcription Genic enhancers Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	196 gene(s)	inside rSNPs	diseases
2	nsv547853	chr1:152008671-152236760	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
3	nsv1014095	chr1:152104486-152454591	Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	nsv947506	chr1:152203216-152223222	Enhancers Weak transcription	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6675889	FLG-AS1	cis	Thyroid	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:152207600-152215400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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