Variant report

Variant	rs558947
Chromosome Location	chr10:25594793-25594794
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 123 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:122)

rs_ID	r²[population]
rs10508694	0.86[JPT][hapmap]
rs10741075	0.91[ASN][1000 genomes]
rs10741077	0.86[JPT][hapmap]
rs10764539	0.85[JPT][hapmap]
rs10764543	0.86[JPT][hapmap]
rs10828770	0.93[CHB][hapmap];0.89[CHD][hapmap];0.92[ASN][1000 genomes]
rs10828774	0.84[CHB][hapmap];0.86[JPT][hapmap]
rs10828775	0.84[JPT][hapmap]
rs10828777	0.86[JPT][hapmap]
rs10828778	0.86[JPT][hapmap]
rs10828791	0.86[JPT][hapmap]
rs10828792	0.86[JPT][hapmap]
rs10828793	0.86[JPT][hapmap]
rs11014490	0.92[ASN][1000 genomes]
rs11014527	0.81[JPT][hapmap]
rs11014528	0.86[JPT][hapmap]
rs11014529	0.86[JPT][hapmap]
rs11014530	0.86[JPT][hapmap]
rs11014550	0.86[JPT][hapmap]
rs11014553	0.86[JPT][hapmap]
rs11014554	0.86[JPT][hapmap]
rs1122776	0.84[JPT][hapmap]
rs1148154	0.86[JPT][hapmap]
rs11818261	0.86[JPT][hapmap]
rs12240665	0.86[JPT][hapmap]
rs12249852	0.86[JPT][hapmap]
rs12251868	0.86[JPT][hapmap]
rs12251917	0.86[JPT][hapmap]
rs12254479	0.86[JPT][hapmap]
rs12256851	0.86[JPT][hapmap]
rs12258671	0.86[JPT][hapmap]
rs12259043	0.86[JPT][hapmap]
rs12259696	0.86[JPT][hapmap]
rs12358447	0.86[JPT][hapmap]
rs1245966	0.92[ASN][1000 genomes]
rs1245967	0.92[ASN][1000 genomes]
rs12762462	0.86[JPT][hapmap];0.83[LWK][hapmap]
rs12773262	0.86[JPT][hapmap]
rs1329259	0.86[JPT][hapmap]
rs1329263	0.86[JPT][hapmap]
rs1329265	0.86[JPT][hapmap]
rs1340002	0.85[CHB][hapmap];0.85[JPT][hapmap];0.83[LWK][hapmap]
rs1341963	0.87[ASW][hapmap];0.92[CEU][hapmap];0.85[CHB][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];0.85[LWK][hapmap];0.89[MEX][hapmap];1.00[MKK][hapmap];0.86[TSI][hapmap]
rs1341964	0.86[JPT][hapmap]
rs1341966	0.85[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs1410932	0.86[JPT][hapmap]
rs1413397	0.86[JPT][hapmap]
rs1576317	0.86[JPT][hapmap]
rs1590836	0.86[JPT][hapmap]
rs1591249	0.86[JPT][hapmap]
rs1591250	0.80[JPT][hapmap]
rs1612200	0.86[JPT][hapmap]
rs1628986	0.86[JPT][hapmap]
rs1754251	0.86[JPT][hapmap]
rs1754260	0.86[JPT][hapmap]
rs1754268	0.86[JPT][hapmap]
rs1760716	0.85[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs1760718	0.86[JPT][hapmap]
rs1760727	0.86[JPT][hapmap]
rs1760728	0.86[JPT][hapmap]
rs1760733	0.86[JPT][hapmap]
rs1760755	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1760758	0.85[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs1760759	0.85[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs1760762	0.86[JPT][hapmap]
rs1760763	0.86[JPT][hapmap]
rs1760766	0.86[JPT][hapmap]
rs1760767	0.86[JPT][hapmap]
rs1773608	0.86[JPT][hapmap]
rs1773612	0.86[JPT][hapmap]
rs1773614	0.86[JPT][hapmap]
rs1773616	0.86[JPT][hapmap]
rs1773617	0.86[JPT][hapmap]
rs1773618	0.86[JPT][hapmap]
rs1773622	0.86[JPT][hapmap]
rs1773623	0.86[JPT][hapmap]
rs1773625	0.80[JPT][hapmap]
rs1773648	0.85[ASN][1000 genomes]
rs1773649	0.93[CHB][hapmap];0.86[CHD][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs1773650	0.93[CHB][hapmap];0.86[CHD][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs1773651	0.88[ASN][1000 genomes]
rs1773689	0.92[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap]
rs1773690	0.92[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap]
rs1812401	0.92[CHB][hapmap];0.80[JPT][hapmap]
rs1855461	0.86[JPT][hapmap]
rs2262989	0.86[ASN][1000 genomes]
rs2795044	0.80[CHD][hapmap];0.86[JPT][hapmap]
rs2807245	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2807247	0.83[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs2807248	0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2807250	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.93[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs2807253	0.93[CHB][hapmap];0.90[CHD][hapmap];0.92[ASN][1000 genomes]
rs2807255	0.86[JPT][hapmap]
rs4351726	0.86[JPT][hapmap]
rs4423091	0.94[ASN][1000 genomes]
rs4431923	0.84[JPT][hapmap]
rs476972	0.86[ASN][1000 genomes]
rs489052	0.93[CHB][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs489186	1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.87[ASN][1000 genomes]
rs495338	0.93[CHB][hapmap];0.83[CHD][hapmap];0.86[JPT][hapmap];1.00[LWK][hapmap];0.84[MKK][hapmap];1.00[YRI][hapmap];0.87[ASN][1000 genomes]
rs495456	0.93[CHB][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs509285	0.93[CHB][hapmap];0.90[CHD][hapmap];0.86[JPT][hapmap]
rs516071	0.93[CHB][hapmap];0.86[CHD][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs518751	0.83[ASN][1000 genomes]
rs532538	0.86[CHB][hapmap];0.98[ASN][1000 genomes]
rs541206	0.93[CHB][hapmap];0.81[JPT][hapmap];0.87[ASN][1000 genomes]
rs543850	0.93[CHB][hapmap];0.86[CHD][hapmap];0.81[JPT][hapmap]
rs573812	0.93[CHB][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs578033	0.92[ASN][1000 genomes]
rs7079892	0.86[JPT][hapmap]
rs7094439	0.86[JPT][hapmap]
rs7100128	0.99[ASN][1000 genomes]
rs7922827	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs824144	0.85[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs824145	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs824146	0.93[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs824147	1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.93[JPT][hapmap];1.00[LWK][hapmap];0.94[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs824590	0.86[JPT][hapmap]
rs824592	0.86[JPT][hapmap]
rs824597	0.86[JPT][hapmap]
rs824598	0.86[JPT][hapmap]
rs824599	0.92[CEU][hapmap];0.85[CHB][hapmap];0.91[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2761583	chr10:25525657-25722444	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs558947	APBB1IP	cis	cerebellum	SCAN
rs558947	YME1L1	cis	parietal	SCAN
rs558947	BAMBI	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
chromosomal regions: chr1:12345-34567

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