Variant report

Variant	rs56050841
Chromosome Location	chr1:158959771-158959772
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11578363	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11583269	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12071289	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56039305	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56317833	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60594681	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72704962	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs856126	0.82[EUR][1000 genomes]
rs860635	0.80[AMR][1000 genomes]
rs9887904	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002401	chr1:158712627-158972031	Flanking Active TSS Strong transcription Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	esv3376764	chr1:158761947-158998617	Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	esv3369957	chr1:158915589-159003393	Strong transcription Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
4	nsv3176	chr1:158955373-158986568	Flanking Active TSS Bivalent Enhancer Enhancers Transcr. at gene 5' and 3' Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:158950800-158965600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr1:158951200-158965600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr1:158953400-158960200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr1:158953600-158965400	Weak transcription	Primary T helper cells fromperipheralblood	blood
5	chr1:158953600-158965600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr1:158953800-158960400	Weak transcription	Primary B cells from cord blood	blood
7	chr1:158954000-158960600	Weak transcription	Primary T cells fromperipheralblood	blood
8	chr1:158954400-158968400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr1:158955000-158968200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr1:158955800-158963600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr1:158956600-158961400	Weak transcription	Primary T cells from cord blood	blood
12	chr1:158956600-158966000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr1:158957000-158965800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr1:158957600-158961000	Strong transcription	Primary T helper cells PMA-I stimulated	--
15	chr1:158958200-158960800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr1:158959400-158961000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--

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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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