Variant report

Variant	rs158980
Chromosome Location	chr5:57989733-57989734
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs1035393	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12054892	0.82[LWK][hapmap]
rs12653046	0.89[LWK][hapmap];0.89[YRI][hapmap]
rs1422226	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs149351	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs149525	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs158955	0.82[JPT][hapmap]
rs158957	0.82[JPT][hapmap]
rs158958	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs158987	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs158990	0.95[CHB][hapmap];0.87[CHD][hapmap];0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs158993	0.90[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs158997	0.80[ASN][1000 genomes]
rs158999	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs159000	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs159002	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap]
rs159003	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs159004	0.90[CHB][hapmap];0.95[JPT][hapmap];0.82[MKK][hapmap];0.82[TSI][hapmap];0.83[YRI][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs159006	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs159007	0.90[CHB][hapmap];0.95[JPT][hapmap];0.82[MKK][hapmap];0.82[TSI][hapmap];0.83[YRI][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs159008	0.86[CHB][hapmap];0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs172397	0.89[EUR][1000 genomes]
rs172398	0.89[EUR][1000 genomes]
rs176637	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs176807	0.88[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs182391	0.88[CEU][hapmap];0.88[EUR][1000 genomes]
rs186010	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1895232	0.91[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2032814	0.86[JPT][hapmap]
rs2032815	0.86[JPT][hapmap]
rs2161246	0.95[CHB][hapmap];0.87[CHD][hapmap];0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs2545789	0.88[CEU][hapmap];0.80[GIH][hapmap];0.89[TSI][hapmap];0.88[EUR][1000 genomes]
rs2591920	0.88[EUR][1000 genomes]
rs2591922	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2591924	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs290572	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs292948	0.84[CEU][hapmap];0.85[EUR][1000 genomes]
rs292949	0.88[CEU][hapmap];0.89[TSI][hapmap];0.88[EUR][1000 genomes]
rs293000	0.89[EUR][1000 genomes]
rs293002	0.88[CEU][hapmap];0.80[GIH][hapmap];0.88[TSI][hapmap];0.89[EUR][1000 genomes]
rs293005	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.91[TSI][hapmap];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs293006	0.91[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs293007	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.91[TSI][hapmap];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs293008	0.90[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs293009	0.85[CHB][hapmap];0.95[JPT][hapmap];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs293010	0.88[CEU][hapmap];0.90[EUR][1000 genomes]
rs293013	0.88[CEU][hapmap];0.89[EUR][1000 genomes]
rs293014	0.89[EUR][1000 genomes]
rs293018	0.88[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.91[TSI][hapmap];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs293019	0.87[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs293023	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs293025	0.91[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.89[TSI][hapmap];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs293026	0.87[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs293027	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs293029	0.88[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs49961	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs63710	0.82[JPT][hapmap]
rs6898044	0.89[YRI][hapmap]
rs9292170	0.86[JPT][hapmap];0.82[LWK][hapmap]

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	esv2830363	chr5:57893949-58555491	Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1029145	chr5:57905821-58141221	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv830311	chr5:57912546-58105636	Enhancers Active TSS Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv4845	chr5:57949493-57994156	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs158980	MAP3K1	cis	parietal	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
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