Variant report

Variant	rs270011
Chromosome Location	chr6:128099465-128099466
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1080436	1.00[CHD][hapmap]
rs11759373	1.00[CHD][hapmap]
rs12194062	1.00[CHD][hapmap]
rs12201026	1.00[CHD][hapmap]
rs1342649	1.00[CEU][hapmap];0.90[GIH][hapmap];0.98[TSI][hapmap];0.83[EUR][1000 genomes]
rs1445644	0.88[CEU][hapmap];0.89[YRI][hapmap];0.86[AMR][1000 genomes]
rs156062	1.00[CHD][hapmap]
rs172008	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2221878	1.00[CHD][hapmap]
rs269990	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs269991	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs269996	0.96[CEU][hapmap];0.81[EUR][1000 genomes]
rs269999	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[LWK][hapmap];0.93[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs270001	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs270002	1.00[CEU][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes]
rs270003	1.00[CEU][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes]
rs270007	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs270008	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs270013	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs270014	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs270015	1.00[CEU][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];0.93[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2780929	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34471518	0.82[AMR][1000 genomes]
rs35158225	0.82[AMR][1000 genomes]
rs440576	1.00[CEU][hapmap]
rs486235	0.80[AMR][1000 genomes]
rs490008	1.00[CHD][hapmap]
rs500192	1.00[CHD][hapmap];0.82[MKK][hapmap]
rs505827	0.81[AMR][1000 genomes]
rs564461	1.00[CHD][hapmap]
rs579177	1.00[CHD][hapmap]
rs6569504	1.00[CHD][hapmap]
rs67116440	0.86[AMR][1000 genomes]
rs683202	0.80[AMR][1000 genomes]
rs6921729	1.00[CEU][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];0.98[TSI][hapmap];0.83[EUR][1000 genomes]
rs699416	1.00[CHD][hapmap]
rs699417	1.00[CHD][hapmap]

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	nsv886639	chr6:127954614-128109244	Strong transcription Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv886643	chr6:127971136-128109244	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv886644	chr6:127976408-128109244	Weak transcription Genic enhancers Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv886647	chr6:127977160-128109244	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv886648	chr6:127983009-128109244	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs270011	OR5B21	trans	parietal	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128082800-128103000	Weak transcription	Thymus	Thymus
2	chr6:128084400-128103000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr6:128088800-128102800	Weak transcription	Primary T cells fromperipheralblood	blood
4	chr6:128090400-128100400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr6:128097600-128102400	Weak transcription	Fetal Thymus	thymus
6	chr6:128097800-128099600	Weak transcription	Primary T cells from cord blood	blood
7	chr6:128099000-128099600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
8	chr6:128099000-128101600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
9	chr6:128099200-128100200	Enhancers	Primary T helper cells fromperipheralblood	blood
10	chr6:128099200-128101200	Enhancers	Primary T killer memory cells from peripheral blood	blood
11	chr6:128099400-128100000	Enhancers	Primary T helper naive cells from peripheral blood	blood
12	chr6:128099400-128100800	Weak transcription	Primary T helper cells PMA-I stimulated	--

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