Variant report

Variant	rs172008
Chromosome Location	chr6:128070433-128070434
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:128066047..128067934-chr6:128068998..128071308,2	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12201026	0.85[YRI][hapmap];0.85[AMR][1000 genomes]
rs12201136	0.85[YRI][hapmap];0.85[AMR][1000 genomes]
rs1342649	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs1445644	0.89[CEU][hapmap];0.86[AMR][1000 genomes]
rs269990	1.00[CEU][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs269991	1.00[CEU][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs269996	0.96[CEU][hapmap];1.00[YRI][hapmap];0.83[EUR][1000 genomes]
rs269999	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs270001	0.96[CEU][hapmap];0.86[EUR][1000 genomes]
rs270002	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs270003	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs270007	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs270008	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs270011	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs270013	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs270014	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs270015	1.00[CEU][hapmap];0.82[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2780929	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs3009961	1.00[YRI][hapmap]
rs34471518	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs35158225	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs440576	1.00[CEU][hapmap]
rs486235	1.00[YRI][hapmap];0.89[AMR][1000 genomes]
rs490008	1.00[YRI][hapmap];0.86[AMR][1000 genomes]
rs500192	1.00[YRI][hapmap]
rs505827	0.81[AMR][1000 genomes]
rs550875	0.85[YRI][hapmap];0.81[AMR][1000 genomes]
rs583072	0.86[AMR][1000 genomes]
rs583956	0.82[AMR][1000 genomes]
rs607496	0.84[AMR][1000 genomes]
rs614885	0.86[AMR][1000 genomes]
rs648151	0.86[AMR][1000 genomes]
rs655681	0.86[AMR][1000 genomes]
rs669663	0.85[YRI][hapmap]
rs67116440	0.86[AMR][1000 genomes]
rs674751	0.85[AMR][1000 genomes]
rs680544	0.83[AMR][1000 genomes]
rs682312	0.84[AMR][1000 genomes]
rs683202	1.00[YRI][hapmap];0.89[AMR][1000 genomes]
rs6921729	1.00[CEU][hapmap];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886638	chr6:127954614-128087172	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	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
3	nsv886640	chr6:127961263-128096587	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv886641	chr6:127971136-128085283	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv886642	chr6:127971136-128096587	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	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
7	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
8	nsv886645	chr6:127977160-128085283	Strong transcription Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	nsv886646	chr6:127977160-128087172	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
10	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
11	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
12	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

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128047200-128082400	Weak transcription	Primary T cells fromperipheralblood	blood
2	chr6:128061800-128082200	Weak transcription	Thymus	Thymus
3	chr6:128068800-128074600	Enhancers	Primary T helper cells PMA-I stimulated	--
4	chr6:128068800-128076600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
5	chr6:128069000-128071400	Enhancers	Primary T killer memory cells from peripheral blood	blood
6	chr6:128069000-128072200	Enhancers	Primary T helper cells fromperipheralblood	blood
7	chr6:128069000-128074800	Enhancers	Primary T helper naive cells from peripheral blood	blood
8	chr6:128069000-128076000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
9	chr6:128069200-128071000	Strong transcription	Fetal Thymus	thymus
10	chr6:128069200-128071800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
11	chr6:128069200-128074400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
12	chr6:128069400-128071200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr6:128069400-128075400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
14	chr6:128069800-128072200	Enhancers	Primary T cells from cord blood	blood

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