Variant report

Variant	rs9879005
Chromosome Location	chr3:112641046-112641047
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1016348	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10804504	0.83[JPT][hapmap]
rs12497951	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1392786	0.82[AMR][1000 genomes]
rs1466872	0.84[AMR][1000 genomes]
rs2171509	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4103791	0.83[AMR][1000 genomes]
rs4682125	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6438118	0.81[CEU][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6438119	0.81[CEU][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6438120	0.82[AMR][1000 genomes]
rs6438122	0.84[AMR][1000 genomes]
rs6769091	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6772799	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6784838	0.83[AMR][1000 genomes]
rs6808249	0.81[CEU][hapmap];0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7355890	0.80[EUR][1000 genomes]
rs7611690	0.87[CEU][hapmap];0.83[YRI][hapmap];0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7615462	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7615572	0.83[TSI][hapmap]
rs7622812	0.87[ASW][hapmap];0.81[CEU][hapmap];0.90[MKK][hapmap];0.85[TSI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7622814	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7646849	0.82[AMR][1000 genomes]
rs7651207	0.83[JPT][hapmap]
rs7652504	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9288959	0.83[JPT][hapmap]
rs9815606	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9819079	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9823363	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9826308	0.81[CEU][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9833991	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9834353	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9834840	0.83[AMR][1000 genomes]
rs9854885	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9864295	0.82[AMR][1000 genomes]
rs9865242	0.81[CEU][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9868053	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9870335	0.83[AMR][1000 genomes]
rs9870568	0.87[ASW][hapmap];0.81[CEU][hapmap];0.90[MKK][hapmap];0.85[TSI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9871985	0.83[TSI][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9877631	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9879149	0.94[ASW][hapmap];0.96[CEU][hapmap];0.86[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.98[LWK][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];0.81[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3431441	chr3:112453467-113213252	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	esv3501334	chr3:112546820-112648766	Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	esv3501335	chr3:112546820-112648766	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	esv1843165	chr3:112628205-112740145	Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112628000-112641800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
2	chr3:112628000-112642000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr3:112628000-112642000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr3:112633400-112650800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr3:112635400-112642000	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr3:112635400-112650600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr3:112635600-112641200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr3:112635600-112646000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr3:112635600-112650400	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr3:112636000-112643600	Weak transcription	Primary T cells from cord blood	blood
11	chr3:112636400-112642000	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr3:112637000-112642000	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr3:112638800-112650400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr3:112639200-112644800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr3:112639400-112650400	Weak transcription	Primary monocytes fromperipheralblood	blood
16	chr3:112640200-112644400	Weak transcription	Primary B cells from peripheral blood	blood
17	chr3:112640200-112650800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr3:112640800-112643000	Strong transcription	Primary neutrophils fromperipheralblood	blood

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