Variant report

Variant	rs857638
Chromosome Location	chr1:168832871-168832872
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:168827977..168831348-chr1:168831730..168835477,4	MCF-7	breast:
2	chr1:168831234..168833463-chr1:168837204..168838715,2	MCF-7	breast:

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10919009	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12057370	0.84[EUR][1000 genomes]
rs12075363	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1322495	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1322502	1.00[ASN][1000 genomes]
rs1322503	1.00[ASN][1000 genomes]
rs1358949	1.00[ASN][1000 genomes]
rs1407479	1.00[ASN][1000 genomes]
rs1570332	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1570333	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1590286	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs200577	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2065130	1.00[ASN][1000 genomes]
rs2065131	1.00[ASN][1000 genomes]
rs2146199	1.00[ASN][1000 genomes]
rs2146202	1.00[ASN][1000 genomes]
rs2146203	1.00[ASN][1000 genomes]
rs2419389	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2419396	1.00[ASN][1000 genomes]
rs2419685	1.00[ASN][1000 genomes]
rs2900886	1.00[ASN][1000 genomes]
rs2984603	1.00[ASN][1000 genomes]
rs2984605	1.00[ASN][1000 genomes]
rs2984606	1.00[ASN][1000 genomes]
rs2984608	1.00[ASN][1000 genomes]
rs2984609	1.00[ASN][1000 genomes]
rs2984610	1.00[ASN][1000 genomes]
rs2984612	1.00[ASN][1000 genomes]
rs3007391	1.00[ASN][1000 genomes]
rs3007398	1.00[ASN][1000 genomes]
rs4656168	1.00[ASN][1000 genomes]
rs56834131	0.84[EUR][1000 genomes]
rs61801628	0.84[EUR][1000 genomes]
rs61801629	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs61801630	0.84[EUR][1000 genomes]
rs61801631	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61801632	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61801634	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs61801636	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs61801637	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61801650	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs61801651	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs61801652	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs61801653	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs61801655	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61801656	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6427154	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6670610	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6681955	1.00[ASN][1000 genomes]
rs6686910	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs704837	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7513128	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7541615	1.00[ASN][1000 genomes]
rs857632	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs857634	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs857636	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs857639	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs857640	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs857642	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs857644	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs857646	0.87[EUR][1000 genomes]
rs911892	1.00[ASN][1000 genomes]
rs911893	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs968047	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs971411	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869415	chr1:168467284-169153863	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
2	nsv831847	chr1:168669877-168850129	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv437258	chr1:168824111-168890420	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:168829800-168833600	Enhancers	HepG2	liver
2	chr1:168831400-168837000	Weak transcription	Stomach Mucosa	stomach
3	chr1:168832000-168833000	Weak transcription	A549	lung
4	chr1:168832200-168834000	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr1:168832400-168833800	Enhancers	Adipose Nuclei	Adipose
6	chr1:168832600-168833800	Enhancers	Fetal Stomach	stomach
7	chr1:168832800-168833400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr1:168832800-168833800	Enhancers	Colon Smooth Muscle	Colon
9	chr1:168832800-168833800	Enhancers	Fetal Lung	lung
10	chr1:168832800-168834200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr1:168832800-168834600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links