Variant report

Variant	rs62204919
Chromosome Location	chr20:41104275-41104276
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	chr1:115299103..115300612-chr20:41104208..41105960,2	MCF-7	breast:
2	chr20:41095500..41098337-chr20:41104090..41106503,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000009307	Chromatin interaction

Extended variants
information (count: 134 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:128)

rs_ID	r²[population]
rs16987003	1.00[EUR][1000 genomes]
rs2867442	0.82[EUR][1000 genomes]
rs41279250	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41279252	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41279254	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41279258	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs41279260	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59691798	1.00[EUR][1000 genomes]
rs6093653	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs61472005	1.00[EUR][1000 genomes]
rs62203501	1.00[AFR][1000 genomes]
rs62203506	1.00[AFR][1000 genomes]
rs62203507	1.00[AFR][1000 genomes]
rs62203509	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62203510	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62203511	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62203512	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62203538	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62203539	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62203540	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62203541	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62203542	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62203543	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62203544	1.00[AFR][1000 genomes]
rs62203545	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62203546	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62203547	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62203548	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62203549	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62203550	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62203551	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62203552	0.82[EUR][1000 genomes]
rs62203553	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62203554	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62203555	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62203556	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62203557	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62203558	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62203559	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62203775	1.00[EUR][1000 genomes]
rs62203777	1.00[EUR][1000 genomes]
rs62203778	1.00[EUR][1000 genomes]
rs62203779	1.00[EUR][1000 genomes]
rs62203780	1.00[EUR][1000 genomes]
rs62203781	1.00[EUR][1000 genomes]
rs62203782	1.00[EUR][1000 genomes]
rs62203783	1.00[EUR][1000 genomes]
rs62203784	1.00[EUR][1000 genomes]
rs62203785	1.00[EUR][1000 genomes]
rs62203788	0.89[EUR][1000 genomes]
rs62203789	0.89[EUR][1000 genomes]
rs62203793	0.89[EUR][1000 genomes]
rs62203794	0.89[EUR][1000 genomes]
rs62204860	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204861	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204862	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204863	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204864	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204865	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204866	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204867	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204868	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204869	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204870	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204871	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204872	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204873	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204874	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204875	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204876	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204877	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204878	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204879	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204880	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204881	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204902	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204903	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204904	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204905	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204906	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204907	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204908	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204909	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204910	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204911	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204912	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204914	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204915	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204916	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204917	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204918	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204920	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204921	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204922	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204923	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204924	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62204925	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs62204926	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs62204927	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs62204928	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs62204929	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs62204930	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs62204931	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs62204932	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs62204933	1.00[EUR][1000 genomes]
rs62204934	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs62204935	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs62204936	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs62204937	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs62204938	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs62204939	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs62204940	1.00[EUR][1000 genomes]
rs62204941	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs62204942	1.00[EUR][1000 genomes]
rs62204943	1.00[AFR][1000 genomes]
rs62204944	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs62204945	1.00[EUR][1000 genomes]
rs62204946	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs62204947	1.00[EUR][1000 genomes]
rs62204950	1.00[EUR][1000 genomes]
rs62204951	1.00[EUR][1000 genomes]
rs62205768	1.00[EUR][1000 genomes]
rs62205769	1.00[EUR][1000 genomes]
rs62205785	1.00[EUR][1000 genomes]
rs62205786	1.00[EUR][1000 genomes]
rs62205788	1.00[EUR][1000 genomes]
rs62205789	1.00[EUR][1000 genomes]
rs764445	0.89[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	esv2751913	chr20:40422982-41269321	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv833987	chr20:41007663-41184914	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
3	nsv1059852	chr20:41087948-41217672	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv544276	chr20:41087948-41217672	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1063422	chr20:41095537-41114340	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv1055546	chr20:41102999-41260749	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:41099400-41112400	Weak transcription	Fetal Muscle Leg	muscle
2	chr20:41102800-41104800	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr20:41103600-41105600	Weak transcription	Gastric	stomach
4	chr20:41104200-41105800	Weak transcription	Cortex derived primary cultured neurospheres	brain

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