Variant report

Variant	rs1151029
Chromosome Location	chr12:32339083-32339084
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:32330903..32333479-chr12:32337570..32339472,2	MCF-7	breast:
2	chr12:32337947..32340107-chr12:32424491..32426226,2	MCF-7	breast:
3	chr12:32258516..32260709-chr12:32337537..32339747,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000257530	Chromatin interaction
ENSG00000151746	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10743783	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10771917	0.88[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10771921	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10844137	1.00[YRI][hapmap];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10844139	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1151009	1.00[YRI][hapmap];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1151010	1.00[YRI][hapmap];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1151011	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1151012	0.89[CEU][hapmap];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1151013	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1151020	0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1151026	0.95[CEU][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1151027	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs161961	1.00[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs161962	1.00[CEU][hapmap];0.93[CHB][hapmap];0.86[JPT][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs161965	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs161968	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs161970	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1684149	0.92[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap]
rs1798586	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2594013	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2594014	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs261905	1.00[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2630578	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2630579	0.81[JPT][hapmap];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2652014	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2652018	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2668299	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2668301	0.88[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2668302	0.81[JPT][hapmap];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2668303	0.82[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2668306	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2668307	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs326631	1.00[CEU][hapmap];0.93[CHB][hapmap];0.86[JPT][hapmap];0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4931610	0.88[ASN][1000 genomes]
rs4931611	0.88[ASN][1000 genomes]
rs4931612	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4931613	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4931614	1.00[YRI][hapmap];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4931615	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4931616	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60718794	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6488034	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7965981	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]

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:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:32269000-32340200	Weak transcription	Dnd41	blood
2	chr12:32293600-32369200	Weak transcription	Thymus	Thymus
3	chr12:32299600-32346200	Weak transcription	Primary B cells from peripheral blood	blood
4	chr12:32309400-32353400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr12:32309600-32346000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr12:32309600-32351400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr12:32309600-32352200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr12:32313400-32369400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr12:32315400-32346000	Weak transcription	Primary B cells from cord blood	blood
10	chr12:32319800-32340400	Weak transcription	Fetal Intestine Small	intestine
11	chr12:32319800-32343600	Weak transcription	Primary hematopoietic stem cells	blood
12	chr12:32323600-32373800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr12:32325400-32347000	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr12:32326000-32351400	Weak transcription	Osteobl	bone
15	chr12:32326000-32353200	Weak transcription	Ovary	ovary
16	chr12:32332000-32342800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr12:32332200-32345800	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr12:32332200-32346600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr12:32332200-32352200	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr12:32332400-32343600	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr12:32332400-32345800	Weak transcription	Fetal Brain Female	brain
22	chr12:32332600-32346200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr12:32333400-32348200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr12:32333400-32369200	Weak transcription	Left Ventricle	heart
25	chr12:32333800-32346800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr12:32335000-32339200	Weak transcription	Primary T cells from cord blood	blood
27	chr12:32335000-32340600	Weak transcription	Brain Germinal Matrix	brain
28	chr12:32335000-32343800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr12:32335000-32345600	Weak transcription	Colon Smooth Muscle	Colon
30	chr12:32335000-32346200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
31	chr12:32335200-32345400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr12:32335600-32344000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr12:32337000-32339600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr12:32337000-32340400	Weak transcription	Lung	lung
35	chr12:32337000-32344800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr12:32337000-32346400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr12:32337000-32364800	Weak transcription	HSMM	muscle
38	chr12:32337000-32369000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr12:32337000-32369800	Weak transcription	Hela-S3	cervix
40	chr12:32337200-32339800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
41	chr12:32337200-32339800	Weak transcription	A549	lung
42	chr12:32337200-32346400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr12:32338000-32340000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr12:32338400-32339200	Strong transcription	HUES6 Cell Line	embryonic stem cell
45	chr12:32338600-32346800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr12:32338800-32340000	Weak transcription	HUES48 Cell Line	embryonic stem cell
47	chr12:32338800-32350600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr12:32339000-32344400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr12:32339000-32344800	Weak transcription	Cortex derived primary cultured neurospheres	brain
50	chr12:32339000-32351400	Weak transcription	NH-A	brain

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