Variant report

Variant	rs269999
Chromosome Location	chr6:128130170-128130171
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10484718	1.00[ASN][1000 genomes]
rs11752561	1.00[ASN][1000 genomes]
rs11759373	1.00[CHD][hapmap]
rs12194062	1.00[CHD][hapmap]
rs12201026	1.00[CHD][hapmap]
rs13204742	1.00[ASN][1000 genomes]
rs1342649	1.00[CEU][hapmap];0.90[GIH][hapmap];0.98[TSI][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1445644	0.88[CEU][hapmap];0.89[YRI][hapmap]
rs156062	1.00[CHD][hapmap]
rs172008	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs269990	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs269991	1.00[CEU][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs269996	0.96[CEU][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs270001	0.96[CEU][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs270002	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]
rs270003	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]
rs270007	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs270008	1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs270011	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]
rs270013	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs270014	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs270015	1.00[CEU][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];0.86[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes]
rs2780929	0.87[AFR][1000 genomes];0.84[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];0.82[MKK][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];0.90[GIH][hapmap];0.98[TSI][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6922159	0.82[EUR][1000 genomes]
rs699416	1.00[CHD][hapmap]
rs699417	1.00[CHD][hapmap]
rs72973730	1.00[ASN][1000 genomes]
rs9398863	1.00[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:1 , 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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs269999	OR5B21	trans	parietal	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128115600-128139200	Weak transcription	Dnd41	blood
2	chr6:128117000-128131400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr6:128119200-128134200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr6:128127600-128131600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
5	chr6:128127600-128131800	Genic enhancers	Primary T helper cells PMA-I stimulated	--
6	chr6:128127600-128145800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr6:128127800-128134000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
8	chr6:128128000-128130400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr6:128128800-128130800	Enhancers	Primary T helper naive cells from peripheral blood	blood
10	chr6:128128800-128130800	Genic enhancers	Primary T killer memory cells from peripheral blood	blood
11	chr6:128129000-128131000	Enhancers	Primary T cells from cord blood	blood
12	chr6:128129200-128130400	Enhancers	Primary T helper cells fromperipheralblood	blood
13	chr6:128129400-128130200	Strong transcription	Primary T cells fromperipheralblood	blood
14	chr6:128129400-128132400	Strong transcription	Fetal Thymus	thymus
15	chr6:128129600-128131400	Weak transcription	Thymus	Thymus
16	chr6:128129800-128130800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--

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