Variant report

Variant	rs4768091
Chromosome Location	chr12:45913177-45913178
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:45911413..45913925-chr12:46121246..46124442,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000189079	Chromatin interaction
ENSG00000273015	Chromatin interaction

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10736027	0.92[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10748424	0.88[CEU][hapmap];0.90[EUR][1000 genomes]
rs10748425	0.91[EUR][1000 genomes]
rs10785574	0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10785575	0.97[EUR][1000 genomes]
rs10785576	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10785578	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10880791	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10880792	0.90[EUR][1000 genomes]
rs10880794	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10880798	0.82[ASN][1000 genomes]
rs10880800	0.83[ASN][1000 genomes]
rs10880803	0.86[ASN][1000 genomes]
rs10880804	0.86[ASN][1000 genomes]
rs10880805	0.83[ASN][1000 genomes]
rs10880806	0.91[ASN][1000 genomes]
rs10880807	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11183062	0.95[EUR][1000 genomes]
rs11183064	0.91[EUR][1000 genomes]
rs11183067	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11183068	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11183069	0.91[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs11183072	0.84[ASN][1000 genomes]
rs11183077	0.87[ASN][1000 genomes]
rs11183078	0.87[ASN][1000 genomes]
rs11183079	0.87[ASN][1000 genomes]
rs12298570	0.87[ASN][1000 genomes]
rs12303053	0.86[ASN][1000 genomes]
rs12303449	0.91[ASN][1000 genomes]
rs12316574	0.84[ASN][1000 genomes]
rs12317115	0.87[ASN][1000 genomes]
rs12320604	0.84[ASN][1000 genomes]
rs12321802	0.86[ASN][1000 genomes]
rs12830362	0.90[ASN][1000 genomes]
rs17096009	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2408253	0.91[EUR][1000 genomes]
rs2408254	0.91[EUR][1000 genomes]
rs2408255	0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2408256	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2408272	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2408318	0.96[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2408323	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2408325	0.89[EUR][1000 genomes]
rs2897889	0.90[EUR][1000 genomes]
rs2897905	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2897907	0.89[EUR][1000 genomes]
rs33971594	0.91[ASN][1000 genomes]
rs34265125	0.86[ASN][1000 genomes]
rs34865395	0.90[ASN][1000 genomes]
rs35296382	0.84[ASN][1000 genomes]
rs4567534	0.90[ASN][1000 genomes]
rs4570651	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4590938	0.90[ASN][1000 genomes]
rs4768090	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4768620	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4768623	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs5001653	0.90[ASN][1000 genomes]
rs5003954	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56217910	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6582553	0.86[EUR][1000 genomes]
rs7133173	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7302122	0.89[EUR][1000 genomes]
rs7311901	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7316226	0.91[EUR][1000 genomes]
rs73285289	0.86[ASN][1000 genomes]
rs7484690	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7486952	0.96[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];0.96[EUR][1000 genomes]
rs7968560	0.96[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832395	chr12:45841765-46039297	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv508672	chr12:45884730-45931091	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv691	chr12:45896295-45946455	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv558760	chr12:45901586-45913177	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv558761	chr12:45901586-45924964	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	esv1842210	chr12:45903118-45940761	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv558767	chr12:45903265-45913177	Enhancers Flanking Active TSS Weak transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv558776	chr12:45903913-45913177	Enhancers Flanking Active TSS Weak transcription	Chromatin interactive region lncRNA	2 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	chr12:45910600-45913800	Enhancers	Fetal Thymus	thymus
2	chr12:45911800-45913200	Enhancers	Primary T cells from cord blood	blood
3	chr12:45911800-45913200	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr12:45912000-45913200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
5	chr12:45912000-45913200	Enhancers	Primary T helper cells PMA-I stimulated	--
6	chr12:45912000-45913200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
7	chr12:45912400-45913200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr12:45912800-45913200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
9	chr12:45912800-45914000	Enhancers	Thymus	Thymus
10	chr12:45912800-45916000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr12:45913000-45915800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links