Variant report

Variant	rs6972259
Chromosome Location	chr7:25561100-25561101
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11974159	1.00[EUR][1000 genomes]
rs1393674	0.89[EUR][1000 genomes]
rs17151781	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58142628	1.00[EUR][1000 genomes]
rs6954822	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6967304	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6972307	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6972325	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6972342	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6976768	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6976878	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6977133	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6977241	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6977303	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6977464	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6977558	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73275559	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv606426	chr7:25254125-25621579	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1016813	chr7:25405859-26150509	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	108 gene(s)	inside rSNPs	diseases
3	nsv538803	chr7:25405859-26150509	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	108 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:25558800-25562800	Enhancers	Primary T helper cells fromperipheralblood	blood
2	chr7:25558800-25563000	Enhancers	Primary T helper cells PMA-I stimulated	--
3	chr7:25559000-25562200	Enhancers	Primary T cells fromperipheralblood	blood
4	chr7:25559000-25563200	Enhancers	Primary T helper naive cells from peripheral blood	blood
5	chr7:25559000-25563200	Enhancers	Primary T killer memory cells from peripheral blood	blood
6	chr7:25559000-25563400	Enhancers	Primary T cells from cord blood	blood
7	chr7:25560200-25561800	Weak transcription	Primary B cells from peripheral blood	blood
8	chr7:25560400-25563400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
9	chr7:25560600-25561800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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