Variant report

Variant	rs12489750
Chromosome Location	chr3:177654829-177654830
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1075544	0.80[ASN][1000 genomes]
rs10936960	0.80[ASN][1000 genomes]
rs11919677	0.91[CHB][hapmap];0.91[JPT][hapmap];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11920776	0.86[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.87[YRI][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11922170	0.81[ASN][1000 genomes]
rs12492069	0.98[ASN][1000 genomes]
rs12492409	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.90[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12496207	0.81[ASN][1000 genomes]
rs12497387	0.95[ASN][1000 genomes]
rs13062823	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13066104	0.80[ASN][1000 genomes]
rs13074448	0.83[ASN][1000 genomes]
rs13075342	0.94[ASN][1000 genomes]
rs1421157	0.80[ASN][1000 genomes]
rs1421158	0.80[ASN][1000 genomes]
rs1421160	0.80[ASN][1000 genomes]
rs1421161	0.80[ASN][1000 genomes]
rs1421162	0.80[ASN][1000 genomes]
rs1421163	0.92[ASN][1000 genomes]
rs1421164	0.91[ASN][1000 genomes]
rs1421169	0.97[ASN][1000 genomes]
rs1421170	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1421173	0.80[ASN][1000 genomes]
rs1582399	0.87[ASN][1000 genomes]
rs16828811	0.86[CEU][hapmap];0.91[CHB][hapmap];1.00[CHD][hapmap];0.90[JPT][hapmap];0.95[ASN][1000 genomes]
rs16828819	0.95[ASN][1000 genomes]
rs1861886	0.98[ASN][1000 genomes]
rs1895068	0.80[ASN][1000 genomes]
rs1895075	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34300091	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34534264	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34603970	0.82[ASN][1000 genomes]
rs34969108	0.99[ASN][1000 genomes]
rs35494413	0.99[ASN][1000 genomes]
rs35569214	0.99[ASN][1000 genomes]
rs35751119	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3978728	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57315928	0.80[ASN][1000 genomes]
rs6769109	0.80[ASN][1000 genomes]
rs6779965	0.82[EUR][1000 genomes]
rs6786110	0.91[CHB][hapmap];0.88[CHD][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6804905	0.80[ASN][1000 genomes]
rs737553	0.80[ASN][1000 genomes]
rs7616735	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7619802	0.85[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.95[ASN][1000 genomes]
rs7648771	0.81[EUR][1000 genomes]
rs9838142	0.80[ASN][1000 genomes]
rs9862300	0.80[ASN][1000 genomes]
rs9875424	0.80[ASN][1000 genomes]

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	nsv931055	chr3:177229521-177889872	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12489750	ATP11B	cis	parietal	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:177648200-177655000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr3:177649200-177657000	Weak transcription	Esophagus	oesophagus
3	chr3:177653600-177662200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr3:177654600-177655000	Enhancers	Placenta Amnion	Placenta Amnion
5	chr3:177654800-177657400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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