Variant report

Variant	rs58454451
Chromosome Location	chr2:11833914-11833915
allele	-/GTATATATATATATATATATATAT
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:11832559..11835214-chr2:11848775..11850407,2	MCF-7	breast:
2	chr2:11832958..11833976-chr2:11924790..11925426,3	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11890286	0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs55676775	1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs56858654	0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs57456819	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs58273936	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs59502453	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs59838011	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs61410870	0.90[ASN][1000 genomes]
rs61430487	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6432234	0.90[ASN][1000 genomes]
rs6754255	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73177496	0.90[ASN][1000 genomes]
rs73179361	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs73179363	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs73179396	0.90[ASN][1000 genomes]
rs73179398	0.90[ASN][1000 genomes]
rs7556803	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7580386	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7580501	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7581186	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7581192	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7583977	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7583991	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7594198	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7594406	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7597552	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7597790	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7598255	0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7598525	0.90[ASN][1000 genomes]
rs7601181	0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7606137	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7606378	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7606724	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010506	chr2:11430965-12057286	Enhancers Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
2	nsv535585	chr2:11430965-12057286	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
3	nsv1003899	chr2:11789374-12248081	Strong transcription Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
4	nsv469449	chr2:11808654-11854012	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv580972	chr2:11808654-11854012	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
6	esv10240	chr2:11832427-11837975	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:11828800-11836800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr2:11829000-11836600	Weak transcription	Fetal Thymus	thymus
3	chr2:11829000-11836600	Weak transcription	Right Atrium	heart
4	chr2:11829000-11836800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr2:11829200-11836000	Weak transcription	Primary hematopoietic stem cells	blood
6	chr2:11829200-11836400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr2:11829200-11836600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr2:11829200-11836600	Weak transcription	Brain Hippocampus Middle	brain
9	chr2:11829200-11836800	Weak transcription	HUVEC	blood vessel
10	chr2:11829200-11837000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr2:11829200-11837000	Weak transcription	HSMM	muscle
12	chr2:11829200-11838400	Weak transcription	Fetal Lung	lung
13	chr2:11829400-11836400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr2:11829400-11836600	Weak transcription	Brain Anterior Caudate	brain
15	chr2:11829400-11836600	Weak transcription	NHEK	skin
16	chr2:11829400-11836800	Weak transcription	Brain Substantia Nigra	brain
17	chr2:11829400-11836800	Weak transcription	Colon Smooth Muscle	Colon
18	chr2:11829400-11837000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr2:11829400-11837000	Weak transcription	Fetal Heart	heart
20	chr2:11829400-11841800	Weak transcription	Primary B cells from cord blood	blood
21	chr2:11831800-11835200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr2:11832600-11834600	Weak transcription	Psoas Muscle	Psoas
23	chr2:11833600-11835400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr2:11833600-11835400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr2:11833600-11836600	Weak transcription	A549	lung
26	chr2:11833600-11836600	Weak transcription	NHDF-Ad	bronchial
27	chr2:11833600-11836800	Weak transcription	Primary monocytes fromperipheralblood	blood
28	chr2:11833600-11836800	Weak transcription	Placenta	Placenta
29	chr2:11833600-11836800	Weak transcription	Gastric	stomach
30	chr2:11833600-11836800	Weak transcription	Rectal Smooth Muscle	rectum
31	chr2:11833600-11836800	Weak transcription	Stomach Smooth Muscle	stomach
32	chr2:11833600-11836800	Weak transcription	Hela-S3	cervix
33	chr2:11833600-11837000	Weak transcription	Primary B cells from peripheral blood	blood
34	chr2:11833600-11837000	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr2:11833600-11838000	Weak transcription	Brain Cingulate Gyrus	brain
36	chr2:11833600-11841800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr2:11833800-11836400	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr2:11833800-11836400	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr2:11833800-11836600	Weak transcription	Ovary	ovary
40	chr2:11833800-11836800	Weak transcription	Adipose Nuclei	Adipose
41	chr2:11833800-11836800	Weak transcription	Pancreas	Pancrea
42	chr2:11833800-11837000	Weak transcription	Colonic Mucosa	Colon
43	chr2:11833800-11837400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr2:11833800-11838000	Weak transcription	Liver	Liver
45	chr2:11833800-11838000	Weak transcription	Duodenum Mucosa	Duodenum

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