Variant report

Variant	rs7629746
Chromosome Location	chr3:159118365-159118366
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1011374	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11921372	0.91[CEU][hapmap]
rs12487415	0.89[AMR][1000 genomes]
rs12487721	1.00[CEU][hapmap];0.84[CHD][hapmap];0.93[GIH][hapmap]
rs12491939	1.00[CEU][hapmap]
rs12492096	1.00[CEU][hapmap];0.90[AMR][1000 genomes]
rs12495863	0.81[ASW][hapmap];1.00[CEU][hapmap];0.87[CHD][hapmap];0.93[GIH][hapmap];0.80[MEX][hapmap]
rs1375409	0.87[CHB][hapmap];0.94[JPT][hapmap]
rs1449000	0.83[AMR][1000 genomes]
rs1449006	1.00[CEU][hapmap];0.87[CHB][hapmap];0.94[JPT][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1449013	0.87[CHB][hapmap];0.94[JPT][hapmap]
rs16830350	1.00[CEU][hapmap];0.84[CHD][hapmap];0.93[GIH][hapmap]
rs1967363	0.91[CEU][hapmap]
rs2365835	0.81[ASW][hapmap];1.00[CEU][hapmap];0.87[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2595251	0.81[CEU][hapmap]
rs2886482	1.00[CEU][hapmap];0.89[AMR][1000 genomes]
rs4679856	1.00[CHB][hapmap];0.94[CHD][hapmap];0.81[GIH][hapmap];0.94[JPT][hapmap];0.93[ASN][1000 genomes]
rs4680509	0.90[ASW][hapmap];1.00[CEU][hapmap];0.87[CHD][hapmap];0.89[GIH][hapmap];0.80[MEX][hapmap];0.86[AMR][1000 genomes]
rs6441260	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];0.94[JPT][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap]
rs6441261	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap]
rs73166274	0.86[AMR][1000 genomes]
rs73166276	0.89[AMR][1000 genomes]
rs73166277	0.89[AMR][1000 genomes]
rs7621541	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs7632141	0.86[CHB][hapmap];0.87[JPT][hapmap]
rs7643870	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs878382	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.82[LWK][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs895876	1.00[CEU][hapmap];0.87[CHB][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs895877	0.91[CEU][hapmap]
rs9834663	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530059	chr3:158332590-159147549	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv470971	chr3:158590928-159158217	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
3	nsv998949	chr3:158774806-159394550	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1004990	chr3:159090974-159174954	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7629746	RSRC1	cis	parietal	SCAN
rs7629746	CCNL1	cis	cerebellum	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
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