Variant report

Variant	rs6779716
Chromosome Location	chr3:60034171-60034172
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs13061158	0.86[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs13062539	0.92[EUR][1000 genomes]
rs13084717	0.92[EUR][1000 genomes]
rs13100563	0.81[EUR][1000 genomes]
rs17062101	0.81[EUR][1000 genomes]
rs17256807	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs17257269	0.85[EUR][1000 genomes]
rs17258256	0.86[EUR][1000 genomes]
rs17258709	0.82[EUR][1000 genomes]
rs17258872	0.82[EUR][1000 genomes]
rs34732137	0.84[EUR][1000 genomes]
rs35066861	0.97[EUR][1000 genomes]
rs35226385	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35755790	0.81[EUR][1000 genomes]
rs3856662	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs67030566	0.86[EUR][1000 genomes]
rs6779755	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs67984492	0.82[EUR][1000 genomes]
rs73093924	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428085	chr3:59782509-60070116	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1014983	chr3:59884024-60558331	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv590387	chr3:59890976-60481459	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv834707	chr3:60005679-60184046	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv876839	chr3:60024084-60039488	Flanking Active TSS Enhancers Genic enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:60031600-60035200	Enhancers	Fetal Thymus	thymus
2	chr3:60032000-60034200	Enhancers	Thymus	Thymus
3	chr3:60033000-60035000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
4	chr3:60033000-60035400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr3:60033200-60034200	Enhancers	Primary T cells fromperipheralblood	blood
6	chr3:60033200-60035000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
7	chr3:60033200-60035000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
8	chr3:60033600-60034200	Enhancers	Dnd41	blood
9	chr3:60033600-60034600	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
10	chr3:60033600-60035000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
11	chr3:60033600-60035000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
12	chr3:60033600-60035000	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
13	chr3:60033800-60034600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr3:60033800-60034800	Flanking Active TSS	Primary T cells from cord blood	blood
15	chr3:60033800-60035000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
16	chr3:60034000-60034200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
17	chr3:60034000-60034400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
18	chr3:60034000-60034600	Enhancers	Primary T killer memory cells from peripheral blood	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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