Variant report

Variant	rs384245
Chromosome Location	chr6:24971403-24971404
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 96 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11961358	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12332964	0.95[ASN][1000 genomes]
rs12332965	0.95[ASN][1000 genomes]
rs127485	0.91[ASN][1000 genomes]
rs1739305	1.00[ASN][1000 genomes]
rs1739326	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1831597	0.95[ASN][1000 genomes]
rs1888931	0.95[ASN][1000 genomes]
rs364555	1.00[ASN][1000 genomes]
rs365630	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs366851	1.00[ASN][1000 genomes]
rs371051	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs371847	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs377146	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs379970	1.00[ASN][1000 genomes]
rs381441	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs384476	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs385067	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs385891	1.00[ASN][1000 genomes]
rs387070	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs389397	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs389399	1.00[ASN][1000 genomes]
rs390218	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs390465	1.00[ASN][1000 genomes]
rs391652	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs391937	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs392661	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs392899	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs393228	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs395417	1.00[ASN][1000 genomes]
rs396599	1.00[ASN][1000 genomes]
rs400010	1.00[ASN][1000 genomes]
rs402518	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs408655	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs413194	1.00[ASN][1000 genomes]
rs418145	1.00[ASN][1000 genomes]
rs419479	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs420634	1.00[ASN][1000 genomes]
rs426423	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs428877	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs432006	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.92[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs438015	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs439918	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4403258	0.95[ASN][1000 genomes]
rs442135	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs449796	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs450392	0.85[LWK][hapmap];0.92[MKK][hapmap];0.86[YRI][hapmap]
rs451084	0.81[AMR][1000 genomes]
rs454251	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs555250	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs569553	0.99[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs57868523	0.95[ASN][1000 genomes]
rs581980	1.00[ASN][1000 genomes]
rs582056	1.00[ASN][1000 genomes]
rs584439	1.00[ASN][1000 genomes]
rs592258	1.00[ASN][1000 genomes]
rs607603	1.00[ASN][1000 genomes]
rs618388	0.91[ASN][1000 genomes]
rs622893	0.87[ASN][1000 genomes]
rs636915	1.00[ASN][1000 genomes]
rs651469	1.00[ASN][1000 genomes]
rs652324	1.00[ASN][1000 genomes]
rs660776	1.00[ASN][1000 genomes]
rs662629	1.00[ASN][1000 genomes]
rs673285	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs673782	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs674720	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs674772	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6907762	0.90[ASN][1000 genomes]
rs6907920	0.95[ASN][1000 genomes]
rs6908148	0.95[ASN][1000 genomes]
rs6910136	0.95[ASN][1000 genomes]
rs6913176	0.90[ASN][1000 genomes]
rs6924615	0.95[ASN][1000 genomes]
rs6938547	0.95[ASN][1000 genomes]
rs6938772	0.90[ASN][1000 genomes]
rs73382387	0.95[ASN][1000 genomes]
rs73729556	0.90[ASN][1000 genomes]
rs73729573	0.95[ASN][1000 genomes]
rs7765763	0.95[ASN][1000 genomes]
rs9461085	0.95[ASN][1000 genomes]
rs9461087	0.95[ASN][1000 genomes]
rs9461088	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9467363	0.90[ASN][1000 genomes]
rs9467364	0.90[ASN][1000 genomes]
rs9467368	0.95[ASN][1000 genomes]
rs9467369	0.95[ASN][1000 genomes]
rs9467370	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022966	chr6:24763776-25154212	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv538160	chr6:24763776-25154212	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv1019504	chr6:24869174-24994758	Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv883482	chr6:24926730-25035920	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv1023989	chr6:24930362-25285679	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
6	nsv1030634	chr6:24938277-25040161	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
7	nsv830610	chr6:24951741-25124239	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
8	esv3336321	chr6:24970943-24972311	Enhancers Weak transcription Strong transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24950400-24988600	Weak transcription	Dnd41	blood
2	chr6:24952800-24973200	Enhancers	Primary T helper cells fromperipheralblood	blood
3	chr6:24954400-24980800	Weak transcription	Thymus	Thymus
4	chr6:24961800-24971600	Enhancers	Primary T helper naive cells from peripheral blood	blood
5	chr6:24966600-24976000	Enhancers	Primary T cells fromperipheralblood	blood
6	chr6:24968400-24974200	Enhancers	Primary T helper cells PMA-I stimulated	--
7	chr6:24968600-24971800	Enhancers	Primary T cells from cord blood	blood
8	chr6:24968600-24972800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
9	chr6:24968800-24971600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
10	chr6:24969200-24980800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr6:24969400-24980600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr6:24969600-24974200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr6:24969800-24974200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr6:24970200-24974200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr6:24970400-24972800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr6:24970800-24972600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr6:24970800-24973200	Enhancers	Primary T killer memory cells from peripheral blood	blood
18	chr6:24970800-24973600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr6:24971000-24974200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
20	chr6:24971200-24971600	Strong transcription	Primary hematopoietic stem cells	blood
21	chr6:24971400-24971600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
22	chr6:24971400-24971600	Enhancers	Gastric	stomach
23	chr6:24971400-24971800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr6:24971400-24974000	Weak transcription	Primary B cells from peripheral blood	blood

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