Variant report

Variant	rs12825052
Chromosome Location	chr12:32345844-32345845
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:32331693..32333915-chr12:32344800..32346339,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11051850	1.00[EUR][1000 genomes]
rs1151028	0.84[EUR][1000 genomes]
rs12301721	0.82[EUR][1000 genomes]
rs12317357	0.82[EUR][1000 genomes]
rs12826324	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs161960	0.97[EUR][1000 genomes]
rs161967	1.00[EUR][1000 genomes]
rs17527955	1.00[JPT][hapmap]
rs17528414	1.00[JPT][hapmap]
rs17584493	1.00[JPT][hapmap]
rs17586170	1.00[JPT][hapmap]
rs34071539	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35186393	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35260617	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35890616	0.82[EUR][1000 genomes]
rs35973578	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71457610	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7952772	1.00[JPT][hapmap]
rs7972023	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3363806	chr12:31872264-32410283	Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	esv3508621	chr12:31872654-32410593	Weak transcription ZNF genes & repeats Active TSS Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	esv3508622	chr12:31872654-32410593	Weak transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	nsv983498	chr12:32153446-32388092	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv898969	chr12:32224948-32375677	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv531960	chr12:32257285-32775277	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
7	esv2751096	chr12:32280340-32702784	Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
8	nsv558171	chr12:32287259-32559693	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
9	nsv437142	chr12:32327158-32354966	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	nsv832366	chr12:32328559-32511360	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv558179	chr12:32331669-32350703	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:32293600-32369200	Weak transcription	Thymus	Thymus
2	chr12:32299600-32346200	Weak transcription	Primary B cells from peripheral blood	blood
3	chr12:32309400-32353400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr12:32309600-32346000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr12:32309600-32351400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr12:32309600-32352200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr12:32313400-32369400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr12:32315400-32346000	Weak transcription	Primary B cells from cord blood	blood
9	chr12:32323600-32373800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr12:32325400-32347000	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr12:32326000-32351400	Weak transcription	Osteobl	bone
12	chr12:32326000-32353200	Weak transcription	Ovary	ovary
13	chr12:32332200-32346600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr12:32332200-32352200	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr12:32332600-32346200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr12:32333400-32348200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr12:32333400-32369200	Weak transcription	Left Ventricle	heart
18	chr12:32333800-32346800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr12:32335000-32346200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr12:32337000-32346400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr12:32337000-32364800	Weak transcription	HSMM	muscle
22	chr12:32337000-32369000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr12:32337000-32369800	Weak transcription	Hela-S3	cervix
24	chr12:32337200-32346400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr12:32338600-32346800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr12:32338800-32350600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr12:32339000-32351400	Weak transcription	NH-A	brain
28	chr12:32339000-32356400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr12:32340000-32346000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr12:32340200-32348000	Weak transcription	A549	lung
31	chr12:32344600-32347400	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
32	chr12:32344800-32346400	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr12:32344800-32346400	Strong transcription	Cortex derived primary cultured neurospheres	brain
34	chr12:32345000-32346200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
35	chr12:32345800-32347200	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
36	chr12:32345800-32347200	ZNF genes & repeats	Fetal Brain Female	brain
37	chr12:32345800-32347400	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
38	chr12:32345800-32347600	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell

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