Variant report

Variant	rs2898088
Chromosome Location	chr12:49031613-49031614
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	chr12:49026074..49028740-chr12:49031175..49033589,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11829853	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11833747	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11835040	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11837277	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11837337	0.81[AFR][1000 genomes]
rs11837959	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2898086	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2898089	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34046666	0.81[EUR][1000 genomes]
rs34080613	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35678179	1.00[AMR][1000 genomes]
rs36119652	0.81[AFR][1000 genomes]
rs3902957	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs55956587	0.85[AFR][1000 genomes]
rs56182935	0.82[EUR][1000 genomes]
rs56934678	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58539734	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59304927	0.81[AFR][1000 genomes]
rs59708884	0.93[AFR][1000 genomes]
rs59815296	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61496293	0.88[EUR][1000 genomes]
rs61751603	1.00[AMR][1000 genomes]
rs61942054	1.00[AMR][1000 genomes]
rs7299151	0.88[EUR][1000 genomes]
rs74088105	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs74088110	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs74089357	0.93[AFR][1000 genomes]
rs74089364	0.93[AFR][1000 genomes]
rs74089369	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3332169	chr12:49005807-49150691	Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:49027600-49046600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr12:49027800-49036600	Weak transcription	Fetal Brain Male	brain
3	chr12:49028200-49045000	Weak transcription	Colonic Mucosa	Colon
4	chr12:49028400-49038000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr12:49028600-49037600	Weak transcription	HSMM	muscle
6	chr12:49028800-49034600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr12:49030000-49047200	Weak transcription	Esophagus	oesophagus
8	chr12:49030200-49036800	Weak transcription	A549	lung
9	chr12:49031000-49036600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr12:49031400-49037400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr12:49031400-49043800	Weak transcription	Muscle Satellite Cultured Cells	--

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