Variant report

Variant	rs35146621
Chromosome Location	chr3:53806817-53806818
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:53741820..53744207-chr3:53806615..53808159,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10510766	0.86[EUR][1000 genomes]
rs11720848	0.87[AMR][1000 genomes]
rs13068596	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2253795	0.85[AMR][1000 genomes]
rs2612028	0.85[AMR][1000 genomes]
rs2680648	0.83[AMR][1000 genomes]
rs35447065	0.86[AMR][1000 genomes]
rs35484438	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3774574	0.88[AMR][1000 genomes]
rs3774581	0.82[EUR][1000 genomes]
rs3774583	0.93[ASN][1000 genomes]
rs3774592	0.82[EUR][1000 genomes]
rs3774594	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3774595	0.84[EUR][1000 genomes]
rs719260	0.87[AMR][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	nsv1003621	chr3:53448934-54425322	Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv1001128	chr3:53659570-53927842	Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1013783	chr3:53694418-53934781	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:53773000-53807600	Strong transcription	Fetal Intestine Large	intestine
2	chr3:53774800-53807200	Strong transcription	Fetal Intestine Small	intestine
3	chr3:53780400-53807000	Weak transcription	Fetal Brain Female	brain
4	chr3:53781800-53807400	Weak transcription	Brain Anterior Caudate	brain
5	chr3:53785000-53811200	Weak transcription	Spleen	Spleen
6	chr3:53786000-53808200	Weak transcription	Liver	Liver
7	chr3:53788800-53807000	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr3:53789800-53814600	Weak transcription	Brain Substantia Nigra	brain
9	chr3:53796600-53807000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr3:53796800-53808000	Weak transcription	Duodenum Mucosa	Duodenum
11	chr3:53798000-53807400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr3:53798800-53807400	Weak transcription	Fetal Brain Male	brain
13	chr3:53802000-53807400	Strong transcription	Fetal Lung	lung
14	chr3:53802200-53807200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr3:53802400-53807000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr3:53802400-53818200	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr3:53803000-53807400	Weak transcription	Brain Hippocampus Middle	brain
18	chr3:53803400-53808200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr3:53803600-53807000	Weak transcription	Fetal Thymus	thymus
20	chr3:53803600-53807400	Weak transcription	Lung	lung
21	chr3:53803800-53807400	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr3:53803800-53808000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr3:53804200-53807000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr3:53805000-53810200	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr3:53805200-53807400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
26	chr3:53805200-53807400	Weak transcription	Pancreas	Pancrea
27	chr3:53806000-53807800	Enhancers	GM12878-XiMat	blood
28	chr3:53806200-53811800	Enhancers	NHDF-Ad	bronchial
29	chr3:53806400-53808200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr3:53806400-53808600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr3:53806600-53807000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
32	chr3:53806600-53807400	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr3:53806600-53808200	Enhancers	Fetal Stomach	stomach
34	chr3:53806600-53808400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr3:53806600-53808400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr3:53806600-53808400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr3:53806600-53808800	Enhancers	NHLF	lung
38	chr3:53806800-53807000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr3:53806800-53807600	Enhancers	Brain Angular Gyrus	brain
40	chr3:53806800-53807600	Enhancers	Placenta	Placenta
41	chr3:53806800-53807600	Enhancers	Right Atrium	heart
42	chr3:53806800-53808000	Weak transcription	Brain Cingulate Gyrus	brain
43	chr3:53806800-53808000	Enhancers	Fetal Muscle Leg	muscle
44	chr3:53806800-53808400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr3:53806800-53808400	Enhancers	Adipose Nuclei	Adipose
46	chr3:53806800-53808400	Enhancers	Osteobl	bone
47	chr3:53806800-53813000	Enhancers	Breast Myoepithelial Primary Cells	Breast

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