Variant report

Variant	rs58289914
Chromosome Location	chr10:49495400-49495401
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:49494826..49497610-chr10:49513560..49515926,2	MCF-7	breast:
2	chr10:49462023..49464427-chr10:49493283..49495844,2	MCF-7	breast:
3	chr10:49422440..49425186-chr10:49494550..49500073,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000107643	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10776589	0.91[AFR][1000 genomes]
rs1919711	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55881844	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59622865	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61188006	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6537557	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6537558	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7075842	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7098618	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7099060	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73300375	0.87[EUR][1000 genomes]
rs74130210	0.86[EUR][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	nsv895366	chr10:49299274-49576454	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv895368	chr10:49381635-49551560	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv467190	chr10:49402084-49576878	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv550811	chr10:49402084-49576878	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv550812	chr10:49484698-49524715	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv895371	chr10:49492075-50232180	Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:49492400-49495400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr10:49492400-49498200	Enhancers	Fetal Thymus	thymus
3	chr10:49493200-49499800	Enhancers	GM12878-XiMat	blood
4	chr10:49493600-49504200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr10:49494000-49495600	Weak transcription	Fetal Heart	heart
6	chr10:49494000-49495600	Weak transcription	Right Atrium	heart
7	chr10:49494000-49497600	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr10:49494200-49495600	Weak transcription	Fetal Muscle Leg	muscle
9	chr10:49494400-49498000	Weak transcription	Adipose Nuclei	Adipose
10	chr10:49494600-49496800	Flanking Active TSS	Dnd41	blood
11	chr10:49495000-49496400	Enhancers	Brain Germinal Matrix	brain
12	chr10:49495000-49498000	Enhancers	Brain Hippocampus Middle	brain
13	chr10:49495200-49496800	Enhancers	Brain Angular Gyrus	brain
14	chr10:49495200-49497800	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr10:49495200-49498200	Enhancers	Brain Substantia Nigra	brain
16	chr10:49495400-49495600	Flanking Active TSS	Brain Anterior Caudate	brain
17	chr10:49495400-49495600	Bivalent/Poised TSS	Brain Dorsolateral Prefrontal Cortex	brain
18	chr10:49495400-49496400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr10:49495400-49496600	Enhancers	Colon Smooth Muscle	Colon
20	chr10:49495400-49496600	Enhancers	Lung	lung
21	chr10:49495400-49496600	Enhancers	Right Ventricle	heart
22	chr10:49495400-49497000	Enhancers	Fetal Stomach	stomach
23	chr10:49495400-49497200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr10:49495400-49497200	Enhancers	Pancreas	Pancrea
25	chr10:49495400-49497400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr10:49495400-49497800	Enhancers	Brain Cingulate Gyrus	brain
27	chr10:49495400-49498200	Enhancers	Brain Inferior Temporal Lobe	brain
28	chr10:49495400-49498800	Enhancers	Breast Myoepithelial Primary Cells	Breast
29	chr10:49495400-49500400	Enhancers	Placenta	Placenta

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