Variant report

Variant	rs4499706
Chromosome Location	chr4:100038300-100038301
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs28730581	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28730584	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28730596	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28730601	0.89[EUR][1000 genomes]
rs28730611	0.92[EUR][1000 genomes]
rs28730617	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28730625	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28730641	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28730643	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28730644	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28730645	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28730646	0.92[EUR][1000 genomes]
rs28730649	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28894370	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28894371	0.80[EUR][1000 genomes]
rs29001338	0.92[EUR][1000 genomes]
rs29001342	0.92[EUR][1000 genomes]
rs29001346	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs29001348	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4295271	0.85[AMR][1000 genomes]
rs5003497	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61431883	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62325239	0.92[EUR][1000 genomes]
rs62325240	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62325241	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62325242	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62325245	0.92[EUR][1000 genomes]
rs6532781	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6532792	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6819694	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6819724	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6822742	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6823388	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6827292	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72897156	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72897165	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72897167	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7667261	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7679102	0.92[EUR][1000 genomes]
rs7681427	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7687322	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7688859	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7699232	0.85[AMR][1000 genomes];0.86[EUR][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	nsv1009017	chr4:99669441-100406394	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv1002927	chr4:99952472-100148690	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv879656	chr4:99976646-100533722	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
4	nsv1005446	chr4:99988287-100121669	Strong transcription Enhancers ZNF genes & repeats Weak transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
5	nsv537196	chr4:99988287-100121669	Strong transcription ZNF genes & repeats Enhancers Genic enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
6	nsv1002574	chr4:100023999-100133693	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	esv3528915	chr4:100025155-100096234	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	esv3528916	chr4:100025155-100096234	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:100012800-100063800	Weak transcription	Aorta	Aorta
2	chr4:100020800-100038600	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr4:100021000-100041200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr4:100023000-100055600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr4:100025800-100038400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr4:100035000-100098200	Weak transcription	Ovary	ovary
7	chr4:100038200-100040000	Enhancers	Liver	Liver

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