Variant report

Variant	rs270002
Chromosome Location	chr6:128153284-128153285
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10484718	1.00[ASN][1000 genomes]
rs11752561	1.00[ASN][1000 genomes]
rs11759373	1.00[CHD][hapmap];0.80[MKK][hapmap]
rs12194062	1.00[CHD][hapmap];0.80[MKK][hapmap];1.00[YRI][hapmap]
rs12201026	1.00[CHD][hapmap]
rs12216016	1.00[YRI][hapmap]
rs13204742	1.00[ASN][1000 genomes]
rs1342649	1.00[CEU][hapmap];1.00[GIH][hapmap];0.98[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1445644	0.88[CEU][hapmap]
rs156062	1.00[CHD][hapmap]
rs172008	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs269990	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs269991	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs269996	0.96[CEU][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs269999	1.00[CEU][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs270001	0.96[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs270003	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs270007	0.86[EUR][1000 genomes]
rs270008	0.86[EUR][1000 genomes]
rs270011	1.00[CEU][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes]
rs270013	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs270014	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs270015	1.00[CEU][hapmap];1.00[CHD][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs2780929	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34867897	1.00[ASN][1000 genomes]
rs36082631	1.00[ASN][1000 genomes]
rs440576	1.00[CEU][hapmap]
rs4895826	0.83[EUR][1000 genomes]
rs490008	1.00[CHD][hapmap]
rs500192	1.00[CHD][hapmap]
rs564461	1.00[CHD][hapmap]
rs579177	1.00[CHD][hapmap]
rs6569519	1.00[CHD][hapmap]
rs67572105	1.00[ASN][1000 genomes]
rs67707912	1.00[ASN][1000 genomes]
rs6921729	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];0.98[TSI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6922159	0.83[EUR][1000 genomes]
rs699416	1.00[CHD][hapmap]
rs699417	1.00[CHD][hapmap]
rs72973730	1.00[ASN][1000 genomes]
rs7749132	1.00[YRI][hapmap]
rs9321104	1.00[CHD][hapmap]
rs9398863	1.00[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830799	chr6:128033100-128194511	Genic enhancers Enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
2	esv1849854	chr6:128143774-128287313	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs270002	OR5B21	trans	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128134800-128180200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr6:128139600-128178800	Weak transcription	Dnd41	blood
3	chr6:128140400-128158400	Strong transcription	Fetal Thymus	thymus
4	chr6:128147200-128156000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr6:128148800-128158000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr6:128151000-128154600	Weak transcription	Primary T cells from cord blood	blood
7	chr6:128151000-128157200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr6:128151200-128154600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr6:128151200-128154600	Weak transcription	Thymus	Thymus
10	chr6:128151200-128160000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr6:128151400-128154600	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr6:128151800-128156000	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr6:128152400-128154600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr6:128152600-128153800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
15	chr6:128153200-128153600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr6:128153200-128153600	Enhancers	Primary T helper cells PMA-I stimulated	--
17	chr6:128153200-128153800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr6:128153200-128160600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links