Variant report

Variant	rs856123
Chromosome Location	chr1:158900275-158900276
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs1102018	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2260107	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2427820	0.92[ASN][1000 genomes]
rs2427822	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2494075	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2511204	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2518515	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2518517	0.88[ASN][1000 genomes]
rs2518519	0.88[ASN][1000 genomes]
rs2518534	0.92[ASN][1000 genomes]
rs2518543	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2518544	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2518545	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2518546	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2518547	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2518548	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2518549	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2518550	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2518551	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2518552	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2793850	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2793852	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2793853	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2793854	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2820126	0.81[EUR][1000 genomes]
rs2820147	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2820148	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2820149	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2820150	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2820151	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2820152	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2820153	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2820154	0.92[ASN][1000 genomes]
rs2820156	0.92[ASN][1000 genomes]
rs2820157	0.92[ASN][1000 genomes]
rs2820162	0.92[ASN][1000 genomes]
rs2820167	0.80[ASN][1000 genomes]
rs2820191	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2820192	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2820194	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2820195	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2852652	0.88[ASN][1000 genomes]
rs2852656	1.00[JPT][hapmap]
rs2852662	0.92[ASN][1000 genomes]
rs2852663	0.92[ASN][1000 genomes]
rs2852664	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2852665	0.88[ASN][1000 genomes]
rs2852666	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2852667	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2852687	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2852688	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2852703	0.88[ASN][1000 genomes]
rs2852704	0.88[ASN][1000 genomes]
rs2852710	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2852711	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2852712	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs4338350	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs7419186	0.85[ASN][1000 genomes]
rs856096	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs856103	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs856104	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs856105	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs856107	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs856108	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs856109	0.90[EUR][1000 genomes]
rs856112	0.89[EUR][1000 genomes]
rs856114	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs856115	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs856116	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs856117	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs856118	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs856119	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs856151	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs860636	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][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	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	nsv872484	chr1:158863845-158909164	Active TSS Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv872485	chr1:158863845-158922287	Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1007597	chr1:158874806-158934301	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:158898600-158900400	Enhancers	Primary T cells fromperipheralblood	blood
2	chr1:158899200-158900600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
3	chr1:158899400-158900400	Enhancers	Primary T cells from cord blood	blood
4	chr1:158899800-158900400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
5	chr1:158899800-158900400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr1:158899800-158900600	Enhancers	Primary T helper cells fromperipheralblood	blood
7	chr1:158899800-158901200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
8	chr1:158899800-158901400	Enhancers	Primary B cells from peripheral blood	blood
9	chr1:158899800-158901400	Enhancers	Dnd41	blood
10	chr1:158900000-158900800	Enhancers	Fetal Thymus	thymus
11	chr1:158900000-158901000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
12	chr1:158900000-158901000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
13	chr1:158900000-158904600	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr1:158900200-158900400	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
15	chr1:158900200-158900600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
16	chr1:158900200-158900800	Enhancers	Primary hematopoietic stem cells	blood
17	chr1:158900200-158900800	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
18	chr1:158900200-158901400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

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