Variant report

Variant	rs2630186
Chromosome Location	chr3:59966228-59966229
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10510822	1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10510823	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1485904	0.89[CHB][hapmap];0.88[CHD][hapmap];0.85[JPT][hapmap]
rs17061544	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17061746	1.00[CEU][hapmap]
rs17254765	1.00[CEU][hapmap];0.83[CHD][hapmap];0.83[ASN][1000 genomes]
rs17302746	0.89[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs17302837	1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1970842	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2101339	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs212029	0.86[YRI][hapmap];0.84[AFR][1000 genomes]
rs212030	0.91[YRI][hapmap];0.90[AFR][1000 genomes]
rs212031	0.85[YRI][hapmap];0.90[AFR][1000 genomes]
rs212033	0.81[YRI][hapmap];0.86[AFR][1000 genomes]
rs2630190	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs3772467	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3772485	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3772506	0.82[CHD][hapmap]
rs3772507	0.88[CHD][hapmap]
rs3821485	1.00[CEU][hapmap];0.81[ASN][1000 genomes]
rs4679623	0.82[JPT][hapmap]
rs4679624	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55659096	0.81[ASN][1000 genomes]
rs55910136	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56257507	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57347814	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7643828	1.00[JPT][hapmap]
rs802771	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9820451	0.91[YRI][hapmap];0.83[AFR][1000 genomes]
rs9862003	0.89[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs9879175	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428085	chr3:59782509-60070116	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1014983	chr3:59884024-60558331	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv590387	chr3:59890976-60481459	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv876838	chr3:59952152-59999690	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv590388	chr3:59957252-60018326	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59961600-59969000	Enhancers	Primary T helper cells PMA-I stimulated	--
2	chr3:59963000-59969400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
3	chr3:59964000-59967800	Enhancers	Primary T cells from cord blood	blood
4	chr3:59964200-59967400	Enhancers	Fetal Thymus	thymus
5	chr3:59964400-59967400	Enhancers	Thymus	Thymus
6	chr3:59964400-59968400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
7	chr3:59964400-59970600	Enhancers	Primary T helper naive cells from peripheral blood	blood
8	chr3:59964600-59969000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
9	chr3:59964600-59969600	Enhancers	Primary T helper cells fromperipheralblood	blood
10	chr3:59964800-59968400	Enhancers	Primary T killer memory cells from peripheral blood	blood
11	chr3:59964800-59969000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
12	chr3:59965200-59966400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr3:59965600-59974600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr3:59966000-59966800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
15	chr3:59966000-59968400	Enhancers	Pancreatic Islets	Pancreatic Islet
16	chr3:59966200-59966400	Transcr. at gene 5' and 3'	Dnd41	blood
17	chr3:59966200-59967400	Enhancers	Primary T cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links