Variant report

Variant	rs2875969
Chromosome Location	chr6:4824872-4824873
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:4823551..4825869-chr6:4828345..4830418,3	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1022497	0.92[AFR][1000 genomes]
rs1022498	0.92[AFR][1000 genomes]
rs11967447	1.00[AFR][1000 genomes]
rs11967765	0.94[AFR][1000 genomes]
rs11967801	0.94[AFR][1000 genomes]
rs11967926	1.00[AFR][1000 genomes]
rs11968053	1.00[AFR][1000 genomes]
rs1265329	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs1265331	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs233475	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs4367417	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs56740053	0.92[AFR][1000 genomes]
rs57143473	0.92[AFR][1000 genomes]
rs57484544	0.92[AFR][1000 genomes]
rs57890105	1.00[AFR][1000 genomes]
rs59852455	0.92[AFR][1000 genomes]
rs60632423	1.00[AFR][1000 genomes]
rs6911106	1.00[AFR][1000 genomes]
rs6922314	0.92[AFR][1000 genomes]
rs6934189	0.92[AFR][1000 genomes]
rs6936040	0.94[AFR][1000 genomes]
rs6939986	1.00[AFR][1000 genomes]
rs7744408	0.92[AFR][1000 genomes]
rs7744582	0.83[AFR][1000 genomes]
rs7747385	0.92[AFR][1000 genomes]
rs7748721	0.92[AFR][1000 genomes]
rs7764676	1.00[AFR][1000 genomes]
rs7764795	1.00[AFR][1000 genomes]
rs7765321	1.00[AFR][1000 genomes]
rs808619	1.00[YRI][hapmap]
rs808623	1.00[YRI][hapmap]
rs808624	1.00[YRI][hapmap]

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	esv3366530	chr6:4471528-4865322	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1023527	chr6:4729592-5387176	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	esv2422499	chr6:4745428-5073222	Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv1015888	chr6:4787784-4883663	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv966675	chr6:4819733-4855009	Weak transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4806800-4829400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr6:4807200-4827800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr6:4812400-4829600	Weak transcription	Left Ventricle	heart
4	chr6:4812600-4826800	Weak transcription	HepG2	liver
5	chr6:4812800-4828800	Weak transcription	Hela-S3	cervix
6	chr6:4814200-4829600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr6:4815000-4826000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr6:4815000-4827400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr6:4815200-4829600	Weak transcription	Lung	lung
10	chr6:4817800-4827000	Weak transcription	K562	blood
11	chr6:4820200-4828000	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr6:4820400-4825400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr6:4820400-4844200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr6:4820800-4825400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:4821200-4853600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr6:4824600-4826400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

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