Variant report

Variant	rs28464000
Chromosome Location	chr17:38004474-38004475
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs13341681	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13380812	1.00[AMR][1000 genomes]
rs28407584	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28409251	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28432878	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28433533	0.87[AFR][1000 genomes]
rs28494476	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28498893	1.00[AMR][1000 genomes]
rs28505218	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28627663	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28661251	1.00[AMR][1000 genomes]
rs28673180	1.00[AMR][1000 genomes]
rs28714172	1.00[AMR][1000 genomes]
rs28882824	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61737968	1.00[AMR][1000 genomes]
rs62065168	1.00[AMR][1000 genomes]
rs62065210	1.00[AMR][1000 genomes]
rs9890508	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9890819	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9893628	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9893933	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9895237	1.00[AMR][1000 genomes]
rs9896961	1.00[AMR][1000 genomes]
rs9897451	1.00[AMR][1000 genomes]
rs9897847	1.00[AMR][1000 genomes]
rs9899977	1.00[AMR][1000 genomes]
rs9900885	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9911163	1.00[AMR][1000 genomes]
rs9913746	1.00[AMR][1000 genomes]
rs9914556	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9916301	1.00[AMR][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	nsv1064787	chr17:37892843-38054410	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
2	nsv543342	chr17:37892843-38054410	Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
3	esv1795575	chr17:37974075-38041762	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:37997400-38005000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
2	chr17:37999600-38006200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
3	chr17:38000000-38005000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
4	chr17:38000000-38006000	Enhancers	Primary T helper cells fromperipheralblood	blood
5	chr17:38000800-38017400	Weak transcription	Thymus	Thymus
6	chr17:38001800-38004800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr17:38003000-38005000	Genic enhancers	Primary B cells from cord blood	blood
8	chr17:38003000-38006200	Genic enhancers	Primary B cells from peripheral blood	blood
9	chr17:38003200-38004600	Transcr. at gene 5' and 3'	GM12878-XiMat	blood
10	chr17:38003200-38006200	Enhancers	Primary T helper cells PMA-I stimulated	--
11	chr17:38003400-38004600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
12	chr17:38003400-38006200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
13	chr17:38003600-38004800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr17:38003600-38005200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr17:38003600-38005600	Enhancers	Primary neutrophils fromperipheralblood	blood
16	chr17:38003600-38006200	Enhancers	Primary T helper naive cells from peripheral blood	blood
17	chr17:38003600-38006200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
18	chr17:38003800-38005000	Enhancers	Fetal Thymus	thymus
19	chr17:38003800-38005800	Enhancers	Primary T cells fromperipheralblood	blood
20	chr17:38003800-38006000	Enhancers	Primary T killer memory cells from peripheral blood	blood
21	chr17:38003800-38006200	Enhancers	Primary T cells from cord blood	blood
22	chr17:38004000-38010800	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr17:38004200-38004600	Bivalent Enhancer	Fetal Lung	lung
24	chr17:38004200-38004800	Enhancers	Fetal Kidney	kidney
25	chr17:38004400-38008600	Weak transcription	Pancreas	Pancrea
26	chr17:38004400-38016800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood

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