Variant report

Variant	rs691175
Chromosome Location	chr1:158178492-158178493
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 168 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:161)

rs_ID	r²[population]
rs10489821	0.92[CEU][hapmap]
rs10489823	0.92[CEU][hapmap]
rs10908630	0.81[AFR][1000 genomes]
rs11264929	0.87[ASN][1000 genomes]
rs11264930	0.82[ASN][1000 genomes]
rs12040592	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12723141	0.81[CHB][hapmap]
rs12726365	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1570699	0.92[CEU][hapmap]
rs1622565	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1622690	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1633135	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1633136	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1633137	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1633138	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1633140	0.80[ASN][1000 genomes]
rs1633141	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1633142	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1633143	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1633149	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap]
rs1633158	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1633159	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1633160	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1633161	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1690782	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1690783	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1748377	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1748378	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1748379	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1748380	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1748381	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1748382	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1748383	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap];0.90[TSI][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1748386	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1748387	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1748395	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2518477	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3018315	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs3087210	0.92[CEU][hapmap]
rs3087211	0.92[CEU][hapmap]
rs3087212	0.92[CEU][hapmap]
rs3118165	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs33998633	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34261126	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34768799	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35043390	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35200730	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35717739	1.00[ASN][1000 genomes]
rs35860011	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36120073	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs368130	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap]
rs372403	0.89[ASN][1000 genomes]
rs374513	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];0.91[JPT][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs374686	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs377795	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs379522	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs380015	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs380314	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs380382	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs383688	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs383819	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs384378	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs384414	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs388861	0.83[AFR][1000 genomes]
rs389495	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs392249	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs392333	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs393304	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap]
rs394591	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs394823	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs395614	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs398012	0.85[AFR][1000 genomes]
rs399687	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs401904	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.90[TSI][hapmap];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs402135	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs402699	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs404278	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs406361	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs406558	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs407309	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs407980	1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap]
rs410919	0.89[ASN][1000 genomes]
rs411088	0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs411395	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs412713	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs413557	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs416989	0.90[YRI][hapmap];0.80[AFR][1000 genomes]
rs420074	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs421484	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs421719	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs422617	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs423405	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs427275	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs429201	1.00[CHB][hapmap];0.97[CHD][hapmap];0.83[GIH][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs429379	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs432627	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs434232	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs434570	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs435349	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs437721	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs439384	0.90[YRI][hapmap]
rs440862	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs440955	0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs442076	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs442575	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs442713	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs448005	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs448556	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs449838	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs454825	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs55819216	0.81[EUR][1000 genomes]
rs583775	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs584126	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs590018	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs592815	0.82[ASN][1000 genomes]
rs594364	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs594840	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs607550	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs607948	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs607982	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs608279	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs611532	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs614164	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs620699	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs621880	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs622707	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs623215	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs638814	0.81[AFR][1000 genomes]
rs651780	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs652269	0.95[ASN][1000 genomes]
rs652786	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6661098	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6677683	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6684696	0.92[ASN][1000 genomes]
rs6690078	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs670766	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs671710	0.84[ASN][1000 genomes]
rs690734	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs690837	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs690984	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs691077	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs691174	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs691240	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs691306	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs691314	1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs691318	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs691368	0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs691551	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs691935	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs691983	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs692052	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs692564	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs71515589	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7530662	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs7548147	0.85[CEU][hapmap]
rs859003	0.92[CEU][hapmap]
rs859005	0.92[CEU][hapmap]
rs859008	0.92[CEU][hapmap]
rs859009	0.91[CEU][hapmap]
rs859010	0.91[CEU][hapmap]
rs859013	0.92[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999542	chr1:158015715-158368132	Bivalent Enhancer Genic enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv872479	chr1:158118787-158484285	Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv872480	chr1:158153526-158450238	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	esv13585	chr1:158159222-158214160	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	esv1814455	chr1:158160528-158200312	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv508626	chr1:158161932-158242158	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	esv1845799	chr1:158175976-158230829	Weak transcription Enhancers Bivalent Enhancer Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs691175	NCSTN	cis	cerebellum	SCAN
rs691175	TDRD10	cis	parietal	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:158174600-158182600	Weak transcription	Thymus	Thymus
2	chr1:158176000-158178600	Weak transcription	Dnd41	blood
3	chr1:158178200-158179400	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr1:158178200-158179400	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr1:158178200-158179400	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr1:158178400-158179000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
7	chr1:158178400-158179400	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr1:158178400-158179400	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr1:158178400-158179600	Enhancers	iPS-15b Cell Line	embryonic stem cell

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