Variant report

Variant	rs12246141
Chromosome Location	chr10:4115015-4115016
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	chr10:3826070..3828691-chr10:4114442..4117278,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000067082	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11252431	1.00[MEX][hapmap]
rs12247512	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12254750	0.92[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12266996	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12268483	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56736206	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57941192	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60080072	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6601799	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73589514	0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051297	chr10:3908706-4277678	Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
2	nsv831772	chr10:4039292-4212218	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1046213	chr10:4059937-4144692	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv540460	chr10:4059937-4144692	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4104400-4117200	Weak transcription	Small Intestine	intestine
2	chr10:4109800-4116200	Weak transcription	Primary T helper cells fromperipheralblood	blood
3	chr10:4110200-4115400	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr10:4110200-4116000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr10:4110400-4115800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr10:4110400-4116000	Weak transcription	HSMM	muscle
7	chr10:4110400-4117000	Weak transcription	Duodenum Mucosa	Duodenum
8	chr10:4110600-4116200	Weak transcription	Stomach Mucosa	stomach
9	chr10:4110800-4115800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr10:4110800-4116000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr10:4112000-4116000	Weak transcription	Primary T cells from cord blood	blood
12	chr10:4112000-4116000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr10:4112000-4116000	Weak transcription	Right Ventricle	heart
14	chr10:4112000-4116200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr10:4112000-4116200	Weak transcription	Primary T cells fromperipheralblood	blood
16	chr10:4112000-4116200	Weak transcription	Fetal Thymus	thymus
17	chr10:4112000-4116200	Weak transcription	Left Ventricle	heart
18	chr10:4112000-4122000	Weak transcription	Spleen	Spleen
19	chr10:4112000-4124600	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr10:4112200-4115600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr10:4112200-4115800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr10:4112200-4115800	Weak transcription	Adipose Nuclei	Adipose
23	chr10:4112200-4115800	Weak transcription	HSMMtube	muscle
24	chr10:4112200-4115800	Weak transcription	NHLF	lung
25	chr10:4112200-4116000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr10:4112200-4116000	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr10:4112200-4116000	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr10:4112200-4116200	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr10:4112200-4116200	Weak transcription	Right Atrium	heart
30	chr10:4112200-4116200	Weak transcription	Dnd41	blood
31	chr10:4112200-4116200	Weak transcription	NH-A	brain
32	chr10:4112400-4116000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr10:4112400-4116400	Weak transcription	Fetal Heart	heart
34	chr10:4113000-4115400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr10:4113000-4116200	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr10:4113200-4116800	Weak transcription	Ovary	ovary
37	chr10:4113400-4116000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr10:4113400-4116200	Weak transcription	Esophagus	oesophagus
39	chr10:4113400-4116200	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr10:4113600-4116200	Weak transcription	Colon Smooth Muscle	Colon
41	chr10:4113800-4116800	Weak transcription	Aorta	Aorta
42	chr10:4114800-4115200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr10:4114800-4116800	Enhancers	NHEK	skin
44	chr10:4114800-4117400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr10:4114800-4117600	Enhancers	NHDF-Ad	bronchial
46	chr10:4114800-4117800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr10:4114800-4117800	Enhancers	Osteobl	bone
48	chr10:4114800-4118200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr10:4114800-4118200	Enhancers	HMEC	breast
50	chr10:4115000-4115200	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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