Variant report

Variant	rs2109862
Chromosome Location	chr7:110600593-110600594
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10242939	0.81[CHB][hapmap]
rs10249084	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs10252294	0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10252992	1.00[CEU][hapmap];1.00[GIH][hapmap];0.85[MEX][hapmap];0.90[TSI][hapmap];0.96[EUR][1000 genomes]
rs10953671	1.00[CEU][hapmap];0.88[CHB][hapmap];0.96[EUR][1000 genomes]
rs11980847	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16873249	0.93[CHB][hapmap]
rs17158049	1.00[MEX][hapmap];0.90[TSI][hapmap]
rs17158169	1.00[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap];0.96[EUR][1000 genomes]
rs17158195	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17158197	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17158220	1.00[CEU][hapmap];0.81[CHB][hapmap];0.89[CHD][hapmap];0.92[GIH][hapmap];0.90[TSI][hapmap];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17158224	1.00[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17158226	0.83[CHB][hapmap]
rs2190530	0.96[EUR][1000 genomes]
rs34140899	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34721514	0.81[CHB][hapmap]
rs4263692	1.00[CEU][hapmap];0.84[JPT][hapmap];0.96[EUR][1000 genomes]
rs4338033	1.00[CEU][hapmap];0.81[CHB][hapmap];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs58932250	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59790783	0.96[EUR][1000 genomes]
rs60109910	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62464015	1.00[EUR][1000 genomes]
rs62464030	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62464031	0.83[EUR][1000 genomes]
rs62464033	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62464035	0.96[EUR][1000 genomes]
rs62464036	0.96[EUR][1000 genomes]
rs62464038	0.92[EUR][1000 genomes]
rs6958325	0.81[CHB][hapmap]
rs9656179	1.00[CEU][hapmap];0.81[CHB][hapmap];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023596	chr7:109984459-110708071	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv539061	chr7:109984459-110708071	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	nsv608147	chr7:110292046-110617845	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv531434	chr7:110310931-110839892	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv888972	chr7:110470629-110635497	Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	esv3506497	chr7:110484691-111091738	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	esv3506498	chr7:110484750-111091689	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv888973	chr7:110509579-110699652	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	nsv888974	chr7:110516659-110660055	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
10	esv2758129	chr7:110523298-110787849	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	esv2759554	chr7:110523298-110787849	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
12	nsv1031546	chr7:110549137-110978256	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
13	nsv817555	chr7:110564801-110990927	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
14	nsv1033286	chr7:110588021-110990928	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
15	nsv539063	chr7:110588021-110990928	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:110567600-110614400	Weak transcription	Psoas Muscle	Psoas
2	chr7:110589000-110604600	Weak transcription	Pancreas	Pancrea
3	chr7:110593600-110603000	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr7:110599000-110603200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr7:110599000-110606200	Weak transcription	Left Ventricle	heart
6	chr7:110599000-110608400	Weak transcription	Aorta	Aorta
7	chr7:110599800-110600600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr7:110599800-110600800	Enhancers	Muscle Satellite Cultured Cells	--
9	chr7:110600400-110601600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr7:110600400-110603200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links