Variant report

Variant	rs399558
Chromosome Location	chr6:28507991-28507992
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:28499347..28503956-chr6:28505758..28508912,7	K562	blood:
2	chr6:28507775..28510636-chr6:28641558..28643450,2	K562	blood:

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs10080420	1.00[EUR][1000 genomes]
rs10434846	0.97[ASN][1000 genomes]
rs10733177	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10755647	0.97[ASN][1000 genomes]
rs10807032	0.97[ASN][1000 genomes]
rs10807036	0.81[ASN][1000 genomes]
rs10807040	0.97[ASN][1000 genomes]
rs11758055	0.97[ASN][1000 genomes]
rs12332986	1.00[EUR][1000 genomes]
rs1474986	0.91[ASN][1000 genomes]
rs2057295	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2191036	1.00[EUR][1000 genomes]
rs2394119	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28382606	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34358978	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34931542	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3757180	1.00[EUR][1000 genomes]
rs381493	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs384399	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3852211	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs389603	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs392471	0.85[ASN][1000 genomes]
rs394772	0.97[ASN][1000 genomes]
rs3999023	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs402426	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs404343	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs408255	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs411538	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4121090	0.97[ASN][1000 genomes]
rs418628	0.97[ASN][1000 genomes]
rs418898	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs420436	0.97[ASN][1000 genomes]
rs420463	0.97[ASN][1000 genomes]
rs422089	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs424426	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs426922	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs429875	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs434636	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs442174	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs443924	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs449074	0.97[ASN][1000 genomes]
rs454746	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4711176	0.97[ASN][1000 genomes]
rs4713172	0.97[ASN][1000 genomes]
rs4713174	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs5007575	0.91[ASN][1000 genomes]
rs55860825	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6456812	1.00[EUR][1000 genomes]
rs6456817	1.00[EUR][1000 genomes]
rs6456820	1.00[EUR][1000 genomes]
rs6456829	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6456832	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6456833	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6899512	1.00[EUR][1000 genomes]
rs6901001	1.00[EUR][1000 genomes]
rs6906826	0.97[ASN][1000 genomes]
rs6908459	1.00[EUR][1000 genomes]
rs6910120	1.00[EUR][1000 genomes]
rs6912921	1.00[EUR][1000 genomes]
rs6918631	1.00[EUR][1000 genomes]
rs6923163	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6925972	0.97[ASN][1000 genomes]
rs6927023	1.00[EUR][1000 genomes]
rs6929449	1.00[EUR][1000 genomes]
rs6935589	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6937042	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6938371	1.00[EUR][1000 genomes]
rs6941222	1.00[EUR][1000 genomes]
rs7381746	0.97[ASN][1000 genomes]
rs7382159	0.97[ASN][1000 genomes]
rs7382309	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7382583	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7752721	1.00[EUR][1000 genomes]
rs7761914	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7771490	0.97[ASN][1000 genomes]
rs7773193	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs911177	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs911178	0.85[ASN][1000 genomes]
rs9295769	1.00[EUR][1000 genomes]
rs9295770	1.00[EUR][1000 genomes]
rs9393922	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9393923	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9461457	1.00[EUR][1000 genomes]
rs9461464	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9468375	1.00[EUR][1000 genomes]
rs9468384	1.00[EUR][1000 genomes]
rs9468394	0.97[ASN][1000 genomes]
rs9654587	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv462666	chr6:28417222-28574415	Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv601210	chr6:28417222-28574415	Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv1020689	chr6:28449137-28635171	Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
4	nsv830621	chr6:28473951-28675709	Bivalent/Poised TSS Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
5	nsv601211	chr6:28483482-28521316	Bivalent Enhancer Active TSS Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
6	nsv435838	chr6:28507880-28514263	Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28504000-28509800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
2	chr6:28505200-28510200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr6:28506000-28510000	Weak transcription	Placenta	Placenta
4	chr6:28506000-28510200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr6:28506200-28509200	Weak transcription	K562	blood
6	chr6:28506400-28510200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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