Variant report

Variant	rs2332544
Chromosome Location	chr4:173543874-173543875
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 91 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10012267	1.00[JPT][hapmap]
rs10022095	1.00[JPT][hapmap]
rs10025284	1.00[JPT][hapmap]
rs10026450	0.88[CEU][hapmap];0.93[TSI][hapmap]
rs10029310	1.00[JPT][hapmap]
rs10029955	0.88[EUR][1000 genomes]
rs10031191	1.00[JPT][hapmap]
rs10031202	0.84[TSI][hapmap]
rs10213357	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10520238	1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs1074144	0.83[EUR][1000 genomes]
rs1097574	1.00[JPT][hapmap]
rs11132960	1.00[JPT][hapmap]
rs11730738	0.83[CEU][hapmap];0.82[EUR][1000 genomes]
rs11734921	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12108242	1.00[JPT][hapmap]
rs12512892	1.00[JPT][hapmap]
rs12645987	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.98[TSI][hapmap]
rs13152161	0.88[CEU][hapmap];0.95[EUR][1000 genomes]
rs1347703	0.89[EUR][1000 genomes]
rs1370572	0.92[CEU][hapmap]
rs1370576	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1370577	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1378312	0.83[CEU][hapmap];0.89[MEX][hapmap];0.82[TSI][hapmap]
rs1437843	0.94[MEX][hapmap];0.84[TSI][hapmap];0.86[EUR][1000 genomes]
rs1437844	0.89[MEX][hapmap];0.84[TSI][hapmap];0.83[EUR][1000 genomes]
rs1455119	1.00[JPT][hapmap]
rs1455120	0.88[CEU][hapmap];0.94[MEX][hapmap];0.89[TSI][hapmap];0.93[EUR][1000 genomes]
rs1455129	0.88[CEU][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap]
rs1540474	1.00[CHB][hapmap];0.87[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.86[TSI][hapmap]
rs1551447	0.88[CEU][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap]
rs1561307	1.00[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.86[TSI][hapmap]
rs1658515	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17058675	0.85[ASN][1000 genomes]
rs17058691	0.88[CEU][hapmap]
rs17058762	1.00[JPT][hapmap]
rs17058765	1.00[JPT][hapmap]
rs17058894	1.00[JPT][hapmap]
rs17058922	1.00[JPT][hapmap]
rs17235632	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1821862	1.00[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.86[TSI][hapmap]
rs2083136	1.00[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.86[TSI][hapmap]
rs2118443	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2164822	1.00[JPT][hapmap]
rs2164823	1.00[JPT][hapmap]
rs2164824	1.00[JPT][hapmap]
rs2164826	1.00[JPT][hapmap]
rs2196669	0.88[CEU][hapmap];0.92[EUR][1000 genomes]
rs35345571	1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4100737	1.00[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.86[TSI][hapmap]
rs4423855	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4572851	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4695893	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[YRI][hapmap]
rs6553639	0.87[CEU][hapmap]
rs6553640	0.86[EUR][1000 genomes]
rs6553647	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6811397	1.00[JPT][hapmap]
rs6826006	1.00[JPT][hapmap]
rs6833340	0.88[CEU][hapmap]
rs6839897	1.00[JPT][hapmap]
rs6841156	1.00[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.86[TSI][hapmap]
rs6844959	1.00[JPT][hapmap]
rs6848466	1.00[JPT][hapmap]
rs6855645	0.82[GIH][hapmap]
rs716647	1.00[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.86[TSI][hapmap]
rs7664781	0.84[CEU][hapmap]
rs7668989	0.88[CEU][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7671314	0.88[CEU][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap]
rs7673000	0.86[EUR][1000 genomes]
rs7674050	1.00[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.86[TSI][hapmap]
rs7686162	1.00[JPT][hapmap]
rs7691283	0.88[CEU][hapmap]
rs7692814	0.88[CEU][hapmap]
rs7693019	0.87[CEU][hapmap]
rs7694956	1.00[JPT][hapmap]
rs7699455	1.00[JPT][hapmap]
rs837189	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap]
rs837213	1.00[JPT][hapmap]
rs9312528	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9312533	1.00[JPT][hapmap]
rs9884518	1.00[JPT][hapmap]
rs9992243	1.00[JPT][hapmap]
rs9993208	1.00[JPT][hapmap]
rs9994145	1.00[JPT][hapmap]
rs9995075	1.00[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.86[TSI][hapmap]
rs9996298	0.91[CEU][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031592	chr4:173112542-173662991	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv537359	chr4:173112542-173662991	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv534293	chr4:173121379-173606082	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv948856	chr4:173388217-173967546	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv949126	chr4:173466221-174051451	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2332544	SAP30	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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