Variant report

Variant	rs28669888
Chromosome Location	chr4:122135295-122135296
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:122120724..122123335-chr4:122133956..122135681,2	MCF-7	breast:
2	chr4:122132988..122135526-chr4:122137849..122140613,2	K562	blood:

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10009822	1.00[AMR][1000 genomes]
rs10017221	1.00[AMR][1000 genomes]
rs10021787	0.83[AMR][1000 genomes]
rs11938699	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs17051305	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs17051318	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17051319	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28452005	0.83[AMR][1000 genomes]
rs28452943	1.00[AMR][1000 genomes]
rs28567402	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs28572759	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28600934	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs28707603	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6534255	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6534256	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6817294	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6825601	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6840309	0.83[AMR][1000 genomes]
rs6845343	0.83[AMR][1000 genomes]
rs6847595	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6847834	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6847971	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6852366	0.83[AMR][1000 genomes]
rs7682759	0.83[AMR][1000 genomes]
rs7684215	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7684241	1.00[AMR][1000 genomes]
rs7684464	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7684586	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9784553	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs9992473	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs9992978	1.00[AMR][1000 genomes]
rs9995558	0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 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
6	nsv817261	chr4:122085173-123020068	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
7	nsv879861	chr4:122126808-122181277	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:122122200-122137600	Weak transcription	Primary T helper cells PMA-I stimulated	--
2	chr4:122130800-122137600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr4:122134200-122136600	Weak transcription	Fetal Lung	lung
4	chr4:122135200-122135400	Enhancers	NHDF-Ad	bronchial
5	chr4:122135200-122135800	Enhancers	Primary T cells fromperipheralblood	blood
6	chr4:122135200-122135800	Enhancers	Primary T helper naive cells from peripheral blood	blood

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