Variant report

Variant	rs10496635
Chromosome Location	chr2:124936157-124936158
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11123030	0.92[CHD][hapmap];0.95[JPT][hapmap]
rs1170578	0.80[JPT][hapmap]
rs1170605	0.88[CEU][hapmap];0.80[CHB][hapmap];0.95[JPT][hapmap]
rs1170606	0.82[CEU][hapmap];0.80[CHB][hapmap];0.92[CHD][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap]
rs1170610	0.88[CEU][hapmap];0.80[CHB][hapmap];0.92[CHD][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap]
rs1170615	0.88[CEU][hapmap];0.80[CHB][hapmap];0.95[JPT][hapmap]
rs1170616	0.88[CEU][hapmap];0.80[CHB][hapmap];0.95[JPT][hapmap]
rs1170617	0.88[CEU][hapmap];0.80[CHB][hapmap];0.92[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap]
rs1170622	0.91[CEU][hapmap];0.83[CHB][hapmap];0.86[JPT][hapmap];0.88[EUR][1000 genomes]
rs1170623	0.87[CEU][hapmap];0.83[CHB][hapmap];0.86[JPT][hapmap];0.88[EUR][1000 genomes]
rs1170624	0.88[CEU][hapmap];0.80[CHB][hapmap];0.92[CHD][hapmap];0.81[GIH][hapmap];0.90[JPT][hapmap];1.00[TSI][hapmap];0.88[EUR][1000 genomes]
rs1170625	0.88[CEU][hapmap];0.90[JPT][hapmap];0.88[EUR][1000 genomes]
rs1170627	0.88[CEU][hapmap];0.80[CHB][hapmap];0.92[CHD][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap]
rs1170628	0.88[CEU][hapmap];0.80[CHB][hapmap];0.95[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap]
rs1170631	0.87[CEU][hapmap];0.80[CHB][hapmap];0.95[JPT][hapmap]
rs1186396	0.84[CHD][hapmap];0.81[JPT][hapmap]
rs1439136	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2163249	0.89[CHD][hapmap];0.95[JPT][hapmap]
rs2579816	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2699377	0.94[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs6541945	0.92[CHD][hapmap];0.95[JPT][hapmap]
rs7560777	0.95[JPT][hapmap]
rs779976	0.84[CHD][hapmap];0.81[JPT][hapmap]
rs779977	0.84[CHD][hapmap];0.81[JPT][hapmap]
rs779985	0.87[CHD][hapmap]
rs779994	0.88[CEU][hapmap];0.80[CHB][hapmap];0.90[JPT][hapmap]
rs779995	0.84[CHD][hapmap]
rs779997	0.84[CHD][hapmap];0.81[JPT][hapmap]
rs780020	0.81[JPT][hapmap]
rs780023	1.00[ASW][hapmap];0.87[CEU][hapmap];0.87[TSI][hapmap]
rs780025	0.81[JPT][hapmap]
rs780026	0.81[JPT][hapmap]
rs780030	0.89[JPT][hapmap]
rs780031	0.81[JPT][hapmap]
rs780032	0.81[JPT][hapmap]
rs780033	0.81[JPT][hapmap]
rs780044	0.81[JPT][hapmap]
rs780050	0.81[JPT][hapmap]
rs780051	0.81[JPT][hapmap]
rs780052	0.82[CEU][hapmap];0.81[JPT][hapmap]
rs796643	0.81[JPT][hapmap]
rs796644	0.81[JPT][hapmap]
rs891409	0.92[CHD][hapmap];0.84[JPT][hapmap];0.92[TSI][hapmap]
rs891410	0.88[CEU][hapmap];0.80[CHB][hapmap];0.90[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531408	chr2:124727329-125011247	Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv874989	chr2:124892592-125176030	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10496635	SFT2D3	cis	cerebellum	SCAN
rs10496635	AMMECR1L	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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