Variant report

Variant	rs6417729
Chromosome Location	chr21:44967202-44967203
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1073522	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs11089020	0.89[ASN][1000 genomes]
rs1122873	0.87[AFR][1000 genomes]
rs11701518	0.96[ASN][1000 genomes]
rs11701746	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12626757	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs1436291	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1454650	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1454651	0.82[EUR][1000 genomes]
rs1584917	0.80[EUR][1000 genomes]
rs1584918	0.84[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs1595167	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs162374	0.80[AMR][1000 genomes]
rs162375	0.80[AMR][1000 genomes]
rs162376	0.80[AMR][1000 genomes]
rs162393	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs162394	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs162399	0.82[AMR][1000 genomes]
rs162400	0.82[AMR][1000 genomes]
rs162403	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1836854	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1836855	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1836856	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs229357	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs2329442	0.84[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs2838316	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs2838320	0.92[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs2838322	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2838324	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2838329	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2838331	0.84[AFR][1000 genomes]
rs2876854	0.96[ASN][1000 genomes]
rs4818833	0.81[EUR][1000 genomes]
rs4818856	0.85[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs4819212	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4819219	0.90[AFR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4819264	0.80[AFR][1000 genomes]
rs4819270	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs56369437	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6518268	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6518302	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7276215	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7278003	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7278282	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7282704	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7282933	0.86[AFR][1000 genomes]
rs7283362	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8131020	0.96[ASN][1000 genomes]
rs9977258	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9979187	0.85[ASN][1000 genomes]
rs9981291	0.84[AFR][1000 genomes];0.83[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	esv1839560	chr21:44864079-44973184	Bivalent Enhancer Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	56 gene(s)	inside rSNPs	diseases
2	nsv913873	chr21:44879869-45142427	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
3	nsv587689	chr21:44884252-44986050	Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
4	nsv1061539	chr21:44915533-45041824	Weak transcription ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
5	nsv1067171	chr21:44921187-45039471	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
6	nsv521700	chr21:44925334-45041790	Enhancers Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
7	nsv470903	chr21:44925334-45061501	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
8	nsv459289	chr21:44925334-45064600	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
9	nsv587690	chr21:44925334-45064600	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
10	esv1837818	chr21:44949285-44987079	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv587691	chr21:44963686-44975129	Weak transcription Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv511632	chr21:44963686-44987079	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:44965600-44967600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr21:44966400-44969600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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