Variant report

Variant	rs10877332
Chromosome Location	chr12:60131598-60131599
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	chr12:60113980..60116792-chr12:60129160..60132180,3	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10459250	0.90[CHB][hapmap]
rs10783997	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10877329	0.92[CHB][hapmap]
rs10877330	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs10877333	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10877334	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10877348	0.90[EUR][1000 genomes]
rs11173115	0.94[CEU][hapmap];1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs11173121	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11173138	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11173183	0.93[EUR][1000 genomes]
rs11173186	0.93[EUR][1000 genomes]
rs11611304	0.84[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs11611808	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12229478	0.92[CHB][hapmap]
rs12231378	0.92[CHB][hapmap]
rs12581981	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17572569	0.80[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs17573052	0.84[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs17650140	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3847656	0.92[CHB][hapmap]
rs4323908	0.91[EUR][1000 genomes]
rs55863604	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55869967	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56053489	0.81[ASN][1000 genomes]
rs56410712	0.84[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs73111818	0.92[ASN][1000 genomes]
rs73113308	0.84[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs7971953	0.91[CHB][hapmap]
rs7972065	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869425	chr12:59746898-60479741	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	esv3365928	chr12:60042531-60343212	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv899132	chr12:60087572-60211476	Strong transcription ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:60099600-60143200	Weak transcription	Primary B cells from peripheral blood	blood
2	chr12:60100000-60175200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr12:60104200-60138000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr12:60110200-60141400	Weak transcription	Dnd41	blood
5	chr12:60113000-60143600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr12:60124000-60168800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
7	chr12:60126200-60138600	Weak transcription	Stomach Smooth Muscle	stomach
8	chr12:60127800-60143000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr12:60127800-60143200	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr12:60128000-60139000	Weak transcription	Fetal Stomach	stomach
11	chr12:60128200-60133800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr12:60128200-60143000	Weak transcription	Gastric	stomach
13	chr12:60128400-60138000	Weak transcription	Esophagus	oesophagus
14	chr12:60128400-60138200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr12:60128400-60139000	Weak transcription	Fetal Thymus	thymus
16	chr12:60128400-60140000	Weak transcription	Thymus	Thymus
17	chr12:60129800-60131600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr12:60129800-60131600	Enhancers	Hela-S3	cervix
19	chr12:60129800-60131600	Enhancers	NHLF	lung
20	chr12:60129800-60131600	Enhancers	Osteobl	bone
21	chr12:60129800-60132400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr12:60130000-60131600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr12:60130200-60131600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr12:60130200-60131600	Enhancers	Adipose Nuclei	Adipose
25	chr12:60130200-60132000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr12:60130200-60132200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr12:60130200-60132400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
28	chr12:60130200-60132400	Enhancers	HMEC	breast
29	chr12:60130200-60132600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr12:60130400-60131600	Enhancers	HUES6 Cell Line	embryonic stem cell
31	chr12:60130600-60138800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
32	chr12:60130800-60142800	Weak transcription	Primary hematopoietic stem cells	blood
33	chr12:60130800-60172200	Weak transcription	Primary T helper cells PMA-I stimulated	--
34	chr12:60131000-60132000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
35	chr12:60131000-60135200	Weak transcription	Primary T cells from cord blood	blood
36	chr12:60131000-60135800	Weak transcription	Primary B cells from cord blood	blood
37	chr12:60131000-60135800	Weak transcription	Aorta	Aorta
38	chr12:60131000-60138000	Weak transcription	Fetal Heart	heart
39	chr12:60131000-60138000	Weak transcription	Left Ventricle	heart
40	chr12:60131000-60139000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr12:60131000-60186000	Weak transcription	Pancreas	Pancrea
42	chr12:60131200-60131800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr12:60131400-60131600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr12:60131400-60131800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr12:60131400-60131800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr12:60131400-60131800	Flanking Active TSS	NHDF-Ad	bronchial
47	chr12:60131400-60132000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr12:60131400-60132400	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr12:60131400-60132400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr12:60131400-60132600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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