Variant report

Variant	rs60590275
Chromosome Location	chr3:59959734-59959735
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs12107803	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17061573	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3772489	0.89[AFR][1000 genomes]
rs41276483	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55666681	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs55804635	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57561694	0.90[AFR][1000 genomes]
rs61148215	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62240114	0.84[AFR][1000 genomes]
rs72875141	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72875143	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72877026	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72877030	0.89[AFR][1000 genomes]
rs72877033	0.89[AFR][1000 genomes]
rs72877036	0.89[AFR][1000 genomes]
rs73839797	0.87[AMR][1000 genomes];0.96[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	nsv876838	chr3:59952152-59999690	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv590388	chr3:59957252-60018326	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 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	chr3:59943200-59964400	Weak transcription	Primary T cells fromperipheralblood	blood
2	chr3:59952000-59961600	Weak transcription	Primary T helper cells PMA-I stimulated	--
3	chr3:59952000-59964400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr3:59956200-59964200	Weak transcription	Fetal Thymus	thymus
5	chr3:59956400-59960800	Strong transcription	Primary T cells from cord blood	blood
6	chr3:59957600-59962000	Strong transcription	Dnd41	blood
7	chr3:59959000-59961400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr3:59959200-59961800	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr3:59959600-59959800	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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