Variant report

Variant	rs10023773
Chromosome Location	chr4:121899126-121899127
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:121843314..121844202-chr4:121898798..121899387,2	MCF-7	breast:
2	chr4:121764972..121765670-chr4:121898848..121899366,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000138738	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs11723302	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12503473	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12640469	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12643559	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12650193	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1839477	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1839478	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2167206	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28816129	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28816505	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28871055	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35253279	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4256244	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4282205	0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4299607	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4301144	0.80[AFR][1000 genomes]
rs4305541	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4321657	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4364285	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4560433	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4571355	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4833699	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56691078	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56997621	0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58275100	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58383744	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59058031	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59370413	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59750154	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6534238	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6817226	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6824931	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6839611	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6841992	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72909750	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72909791	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72909794	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72909796	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72909798	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72909799	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72909801	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72911603	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72911604	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72911617	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7690941	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9715880	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv998094	chr4:121504565-122374203	Weak transcription Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv1009395	chr4:121841442-122557363	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv537235	chr4:121841442-122557363	Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	esv3386870	chr4:121867625-122208448	Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv879859	chr4:121892490-122438312	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 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	chr4:121894000-121900000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr4:121899000-121899200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links