Variant report

Variant	rs2108375
Chromosome Location	chr7:40851053-40851054
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs1006376	0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs1013574	0.83[JPT][hapmap];0.84[ASN][1000 genomes]
rs10225209	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs10225445	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs10226900	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs10231324	0.96[EUR][1000 genomes]
rs10231545	1.00[CEU][hapmap];0.82[YRI][hapmap];0.93[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs10233069	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10235458	0.87[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs10243080	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs10252053	1.00[CEU][hapmap];1.00[YRI][hapmap];0.99[EUR][1000 genomes]
rs10276001	0.90[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs10276629	1.00[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs10279715	0.83[CHB][hapmap];0.85[ASN][1000 genomes]
rs1029620	0.93[ASN][1000 genomes]
rs1029621	0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs10951639	0.96[CHB][hapmap];0.96[JPT][hapmap];0.93[ASN][1000 genomes]
rs1115714	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs1115715	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs1203569	0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs1203573	0.80[CHB][hapmap]
rs12537964	0.83[JPT][hapmap];0.84[ASN][1000 genomes]
rs12666544	1.00[CEU][hapmap];0.83[CHB][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs12701835	0.93[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs13237870	0.99[EUR][1000 genomes]
rs13240894	0.96[EUR][1000 genomes]
rs13243593	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13246232	0.86[CHB][hapmap];0.87[JPT][hapmap];0.92[ASN][1000 genomes]
rs17530165	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs17530213	0.96[CEU][hapmap];0.81[CHB][hapmap];0.92[EUR][1000 genomes]
rs17621030	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs17688285	0.93[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs17688414	0.95[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs1921746	1.00[CEU][hapmap];0.82[YRI][hapmap];0.90[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs1921747	1.00[CEU][hapmap];0.82[YRI][hapmap];0.93[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs1921748	1.00[CEU][hapmap];0.90[YRI][hapmap];0.99[EUR][1000 genomes]
rs2108376	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2329877	0.95[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs34565813	0.84[ASN][1000 genomes]
rs34689844	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35146091	0.98[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs35570092	0.99[EUR][1000 genomes]
rs35712272	0.96[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs35995194	0.94[ASN][1000 genomes]
rs3815265	1.00[CEU][hapmap];1.00[YRI][hapmap];0.99[EUR][1000 genomes]
rs4050963	0.96[EUR][1000 genomes]
rs4460274	0.96[CEU][hapmap];0.92[EUR][1000 genomes]
rs4723979	0.83[JPT][hapmap];0.84[ASN][1000 genomes]
rs62449401	0.99[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs6462989	0.87[CHB][hapmap];0.87[JPT][hapmap];0.92[ASN][1000 genomes]
rs68023334	0.99[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs6949092	0.84[ASN][1000 genomes]
rs723838	0.91[ASN][1000 genomes]
rs7801192	0.94[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs7804009	0.89[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs7807596	1.00[CEU][hapmap];0.82[CHB][hapmap];0.94[EUR][1000 genomes]
rs7808211	1.00[CEU][hapmap];0.80[YRI][hapmap];0.96[EUR][1000 genomes]
rs886831	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030648	chr7:40218618-41032599	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv830972	chr7:40814709-40945917	Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv830973	chr7:40816419-40851594	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:40848800-40854200	Weak transcription	HMEC	breast
2	chr7:40849800-40854600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr7:40849800-40854800	Weak transcription	Osteobl	bone
4	chr7:40850000-40854600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr7:40850600-40851200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr7:40850600-40851800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr7:40850600-40854800	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr7:40851000-40851400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links