Variant report

Variant	rs3924177
Chromosome Location	chr4:26846365-26846366
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:26840051..26842840-chr4:26845886..26847935,2	K562	blood:
2	chr4:26766814..26768633-chr4:26844844..26846857,2	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10023256	0.81[JPT][hapmap]
rs12644232	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs12648597	0.93[AFR][1000 genomes]
rs13434709	0.80[JPT][hapmap]
rs17555311	0.94[JPT][hapmap]
rs28445387	0.82[EUR][1000 genomes]
rs4133239	0.82[EUR][1000 genomes]
rs4259045	0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4376128	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4575981	0.96[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4692128	0.82[EUR][1000 genomes]
rs4692129	0.90[ASW][hapmap];0.92[CEU][hapmap];0.89[MEX][hapmap];0.82[EUR][1000 genomes]
rs4692131	0.94[ASN][1000 genomes]
rs4692132	0.81[JPT][hapmap]
rs6448478	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6448480	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6448481	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6448482	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6448483	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6448485	0.94[ASN][1000 genomes]
rs6448486	0.84[CEU][hapmap]
rs6448487	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs6830323	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs6830424	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6831605	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs6847438	0.88[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs725981	0.89[JPT][hapmap]
rs7658174	0.82[CHB][hapmap];0.95[JPT][hapmap]
rs7666651	0.92[CHB][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs7678576	0.82[EUR][1000 genomes]
rs7688788	0.92[CEU][hapmap]
rs7692953	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs9654110	0.81[JPT][hapmap]
rs9998368	0.94[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.94[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	nsv470021	chr4:26721578-27067027	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv1001306	chr4:26821511-26955344	Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv461312	chr4:26844674-27078376	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv593872	chr4:26844674-27078376	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3924177	STIM2	cis	parietal	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:26840000-26858800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr4:26841400-26858600	Weak transcription	Aorta	Aorta
3	chr4:26841600-26858600	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr4:26842400-26858800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr4:26842800-26846400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr4:26843400-26858400	Weak transcription	Thymus	Thymus
7	chr4:26845200-26850600	Weak transcription	Primary monocytes fromperipheralblood	blood

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