Variant report

Variant	rs1833907
Chromosome Location	chr5:35904614-35904615
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:35901240..35903407-chr5:35903711..35905458,2	MCF-7	breast:
2	chr5:35903849..35906622-chr5:35908097..35910949,2	MCF-7	breast:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs1008756	1.00[ASN][1000 genomes]
rs1010599	1.00[ASN][1000 genomes]
rs1010601	1.00[ASN][1000 genomes]
rs1025039	1.00[ASN][1000 genomes]
rs10491434	0.88[CEU][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.82[TSI][hapmap];0.85[EUR][1000 genomes]
rs10491435	0.84[EUR][1000 genomes]
rs1053496	0.88[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs11567685	0.83[EUR][1000 genomes]
rs11567699	0.88[CEU][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.82[TSI][hapmap];0.83[EUR][1000 genomes]
rs11567701	0.87[CEU][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs11567751	0.88[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs11949691	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11950831	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11960511	0.87[EUR][1000 genomes]
rs1345827	1.00[ASN][1000 genomes]
rs1382347	1.00[JPT][hapmap]
rs1494554	0.88[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs1494571	0.88[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs16902573	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17376481	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2194224	0.91[ASN][1000 genomes]
rs2287900	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2361403	0.91[ASN][1000 genomes]
rs3194051	0.88[CEU][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.82[TSI][hapmap];0.85[EUR][1000 genomes]
rs3822733	0.88[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs3866449	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4024109	0.83[ASN][1000 genomes]
rs4024110	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs55654952	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59030624	1.00[ASN][1000 genomes]
rs62351973	0.82[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs62355272	0.81[EUR][1000 genomes]
rs67207043	0.87[EUR][1000 genomes]
rs6859465	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6862692	1.00[ASN][1000 genomes]
rs6868693	0.84[ASW][hapmap]
rs6871116	0.96[CEU][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6873195	0.81[ASN][1000 genomes]
rs6878577	0.94[ASN][1000 genomes]
rs6878688	1.00[ASN][1000 genomes]
rs700179	1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs72742471	0.94[ASN][1000 genomes]
rs7702587	0.84[ASN][1000 genomes]
rs7702828	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7705615	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7719334	0.94[ASN][1000 genomes]
rs7723452	0.91[ASN][1000 genomes]
rs9764914	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9765078	0.94[ASN][1000 genomes]
rs984164	1.00[ASN][1000 genomes]
rs987107	0.88[CEU][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.82[TSI][hapmap];0.85[EUR][1000 genomes]
rs990716	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[GIH][hapmap];0.97[TSI][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][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	nsv471011	chr5:35861068-36003217	Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv830261	chr5:35863084-36018048	Weak transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1025695	chr5:35902486-36036934	Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:35899000-35906000	Enhancers	Primary T helper cells PMA-I stimulated	--
2	chr5:35899000-35909200	Enhancers	Fetal Thymus	thymus
3	chr5:35899200-35905400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
4	chr5:35901000-35905400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
5	chr5:35902400-35905000	Enhancers	Primary T cells fromperipheralblood	blood
6	chr5:35903400-35904800	Weak transcription	Thymus	Thymus
7	chr5:35904400-35905200	ZNF genes & repeats	Dnd41	blood
8	chr5:35904600-35904800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
9	chr5:35904600-35904800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr5:35904600-35904800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
11	chr5:35904600-35905000	Enhancers	Primary T helper naive cells from peripheral blood	blood
12	chr5:35904600-35905000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
13	chr5:35904600-35905400	Enhancers	Primary T helper cells fromperipheralblood	blood
14	chr5:35904600-35905400	Flanking Active TSS	GM12878-XiMat	blood
15	chr5:35904600-35905600	Enhancers	Primary T killer memory cells from peripheral blood	blood

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