Variant report

Variant	rs662608
Chromosome Location	chr6:24957225-24957226
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs127486	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2307300	1.00[GIH][hapmap]
rs374675	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs379206	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs384411	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs425081	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs441572	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs453666	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58362069	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs608943	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs618383	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs618393	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs620115	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs621558	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs631693	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs638321	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs654285	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];1.00[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	esv1004432	chr6:24954085-24957427	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24950400-24988600	Weak transcription	Dnd41	blood
2	chr6:24951200-24960800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:24951800-24961600	Weak transcription	Spleen	Spleen
4	chr6:24952600-24958400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
5	chr6:24952800-24957800	Enhancers	Primary B cells from peripheral blood	blood
6	chr6:24952800-24957800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr6:24952800-24958400	Enhancers	Primary T cells fromperipheralblood	blood
8	chr6:24952800-24964800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
9	chr6:24952800-24966600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
10	chr6:24952800-24973200	Enhancers	Primary T helper cells fromperipheralblood	blood
11	chr6:24953200-24959000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr6:24953400-24957600	Enhancers	Primary neutrophils fromperipheralblood	blood
13	chr6:24953400-24958400	Enhancers	Monocytes-CD14+_RO01746	blood
14	chr6:24954400-24957400	Enhancers	Primary B cells from cord blood	blood
15	chr6:24954400-24957800	Enhancers	Primary T killer memory cells from peripheral blood	blood
16	chr6:24954400-24980800	Weak transcription	Thymus	Thymus
17	chr6:24954600-24957800	Enhancers	Primary T cells from cord blood	blood
18	chr6:24954600-24959600	Weak transcription	Fetal Thymus	thymus
19	chr6:24955200-24959000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr6:24955200-24959200	Weak transcription	Primary hematopoietic stem cells	blood
21	chr6:24956800-24957400	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
22	chr6:24956800-24957600	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
23	chr6:24956800-24958200	Enhancers	Primary monocytes fromperipheralblood	blood
24	chr6:24957000-24957400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr6:24957000-24958800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
26	chr6:24957200-24957400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
27	chr6:24957200-24957400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
28	chr6:24957200-24957400	Enhancers	GM12878-XiMat	blood
29	chr6:24957200-24959000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr6:24957200-24959400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood

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