Variant report

Variant	rs10880841
Chromosome Location	chr12:46097269-46097270
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:46095651..46097823-chr12:46121185..46122785,2	MCF-7	breast:
2	chr12:46093280..46095492-chr12:46096782..46099448,2	K562	blood:
3	chr12:46092526..46097568-chr12:46119877..46124141,5	K562	blood:
4	chr12:46093055..46096201-chr12:46096853..46099448,3	K562	blood:

Variant related genes	Relation type
ENSG00000273015	Chromatin interaction
ENSG00000189079	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10880846	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10880847	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10880848	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10880849	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10880850	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10880851	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10880853	1.00[CEU][hapmap];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11183166	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11183173	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11183178	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11183179	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11183180	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11183181	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11610813	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11613663	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12318735	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12320114	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12367059	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12423797	0.85[EUR][1000 genomes]
rs12424874	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12426716	0.85[EUR][1000 genomes]
rs12427001	0.90[EUR][1000 genomes]
rs12427272	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17712083	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17712809	0.94[CEU][hapmap];0.89[TSI][hapmap]
rs17774089	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17774927	0.89[CEU][hapmap];0.86[TSI][hapmap]
rs183646	0.94[CEU][hapmap];0.86[TSI][hapmap]
rs2059405	0.94[CEU][hapmap];0.89[TSI][hapmap]
rs2111963	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2160983	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2408436	0.94[CEU][hapmap];0.89[TSI][hapmap]
rs247927	0.94[CEU][hapmap]
rs2897910	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35123	0.94[CEU][hapmap];0.89[TSI][hapmap]
rs35124	0.94[CEU][hapmap];0.86[TSI][hapmap]
rs3759404	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4512915	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4514487	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4768659	0.90[EUR][1000 genomes]
rs4768660	0.94[CEU][hapmap];0.89[TSI][hapmap];0.85[EUR][1000 genomes]
rs4768662	0.94[CEU][hapmap]
rs57267123	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs67790232	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73095414	0.81[EUR][1000 genomes]
rs73095421	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73095422	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73095489	0.84[EUR][1000 genomes]
rs7485654	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv899052	chr12:46068394-46175469	Active TSS Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:46088400-46097400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr12:46095800-46106800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr12:46097200-46097800	Enhancers	Left Ventricle	heart
4	chr12:46097200-46098800	Weak transcription	Fetal Heart	heart
5	chr12:46097200-46114600	Weak transcription	Primary hematopoietic stem cells	blood

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