Variant report

Variant	rs4560414
Chromosome Location	chr4:106225022-106225023
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:106197623..106199957-chr4:106222929..106225459,2	MCF-7	breast:

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs1017988	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1391436	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1498124	0.95[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17035323	1.00[ASN][1000 genomes]
rs17035436	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17035468	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17035475	0.91[CEU][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17035478	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17035512	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17035581	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17035586	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs17035619	0.82[EUR][1000 genomes]
rs28561818	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs34628486	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs41372153	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs41438151	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4273475	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4698934	1.00[ASN][1000 genomes]
rs4698935	1.00[ASN][1000 genomes]
rs4698937	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4698938	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4699169	0.89[CEU][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4699170	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4699172	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4699173	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs55755102	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs55758341	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs55998107	0.85[EUR][1000 genomes]
rs56184249	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs56256811	0.82[AMR][1000 genomes]
rs56387770	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs56397029	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs58566149	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs59738222	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs59939789	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6533188	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs66517713	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs66712969	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs66867451	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs66956902	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs66988826	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs67075366	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs67104841	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs67124324	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs67209101	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs67248885	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs67457538	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs67554145	0.82[AMR][1000 genomes]
rs67670123	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6811159	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs68146425	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6823995	0.84[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs72665924	1.00[ASN][1000 genomes]
rs72665926	1.00[ASN][1000 genomes]
rs72665928	1.00[ASN][1000 genomes]
rs72665931	1.00[ASN][1000 genomes]
rs72665935	1.00[ASN][1000 genomes]
rs72665979	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72665980	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72665984	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72668208	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72668219	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs72668239	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7656023	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7673307	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7678439	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9942141	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461609	chr4:105869548-106366209	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv470063	chr4:105869548-106366209	Transcr. at gene 5' and 3' Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv595007	chr4:105869548-106366209	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv879698	chr4:106155751-106309224	Weak transcription Genic enhancers Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv879699	chr4:106212562-106698892	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
6	nsv830027	chr4:106222010-106406738	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106225000-106226200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links