Variant report

Variant	rs6875403
Chromosome Location	chr5:12109995-12109996
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	chr5:12109202..12110069-chr5:16588549..16589239,2	MCF-7	breast:
2	chr5:12103918..12106278-chr5:12109691..12111309,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10462586	0.83[EUR][1000 genomes]
rs17823762	0.80[EUR][1000 genomes]
rs1808270	0.86[EUR][1000 genomes]
rs2215253	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2907273	0.86[EUR][1000 genomes]
rs2907278	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2907280	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2966901	0.81[EUR][1000 genomes]
rs2968089	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2968091	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2968102	0.80[EUR][1000 genomes]
rs2968121	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2968122	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs32285	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4260673	0.86[EUR][1000 genomes]
rs4602627	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4702848	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55813664	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56104855	0.85[EUR][1000 genomes]
rs60419314	0.80[EUR][1000 genomes]
rs62338055	0.80[EUR][1000 genomes]
rs6870511	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6874191	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7732848	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs969805	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880532	chr5:12022698-12113211	Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv597155	chr5:12022698-12251916	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
3	esv2757983	chr5:12034304-12208440	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv2759323	chr5:12034304-12208440	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv427710	chr5:12034304-12208440	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv1016098	chr5:12042741-12310988	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1025096	chr5:12049731-12778382	Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
8	nsv537660	chr5:12049731-12778382	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
9	nsv1017632	chr5:12061376-12139699	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv537661	chr5:12061376-12139699	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:12108600-12112800	Enhancers	Fetal Intestine Large	intestine
2	chr5:12109200-12111000	Enhancers	Liver	Liver
3	chr5:12109200-12111600	Enhancers	Fetal Intestine Small	intestine

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