Variant report

Variant	rs979870
Chromosome Location	chr3:111042571-111042572
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:111042529..111044033-chr3:111050844..111053535,2	MCF-7	breast:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1352502	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1387225	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2634535	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2698347	0.96[ASN][1000 genomes]
rs2698354	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2698355	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2932040	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2932041	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2932042	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2950974	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2950975	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2958081	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2958084	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2971351	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2971352	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34257885	0.81[AFR][1000 genomes]
rs71315874	0.81[AFR][1000 genomes]
rs7648997	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs997029	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[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	nsv1003106	chr3:110264476-111105943	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv829675	chr3:110885605-111101858	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv877339	chr3:110889974-111070554	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111031400-111042600	Enhancers	Dnd41	blood
2	chr3:111033600-111044200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr3:111034800-111043600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr3:111035400-111044200	Weak transcription	HSMMtube	muscle
5	chr3:111040000-111043000	Weak transcription	Primary hematopoietic stem cells	blood
6	chr3:111040400-111043200	Enhancers	Adipose Nuclei	Adipose
7	chr3:111040600-111042600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr3:111041000-111042600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr3:111041000-111042600	Weak transcription	Stomach Mucosa	stomach
10	chr3:111041000-111043400	Weak transcription	HMEC	breast
11	chr3:111041000-111043400	Weak transcription	HSMM	muscle
12	chr3:111041000-111043600	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr3:111041000-111045000	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr3:111041200-111042600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr3:111041600-111043000	Enhancers	Fetal Thymus	thymus
16	chr3:111041600-111047200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr3:111042000-111042800	Enhancers	Primary T cells from cord blood	blood
18	chr3:111042000-111042800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
19	chr3:111042000-111042800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
20	chr3:111042000-111042800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
21	chr3:111042000-111042800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
22	chr3:111042000-111042800	Enhancers	Thymus	Thymus
23	chr3:111042000-111043800	Enhancers	Primary hematopoietic stem cells short term culture	blood
24	chr3:111042000-111044400	Enhancers	Primary B cells from peripheral blood	blood
25	chr3:111042200-111042800	Enhancers	Primary T helper naive cells from peripheral blood	blood
26	chr3:111042200-111044000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr3:111042200-111044000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr3:111042400-111042600	Active TSS	Primary T killer memory cells from peripheral blood	blood
29	chr3:111042400-111042800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
30	chr3:111042400-111042800	Enhancers	Primary T helper cells PMA-I stimulated	--
31	chr3:111042400-111043000	Enhancers	Primary T helper cells fromperipheralblood	blood
32	chr3:111042400-111043000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
33	chr3:111042400-111043000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood

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