Variant report

Variant	rs3864216
Chromosome Location	chr4:7380039-7380040
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	chr4:7379670..7381494-chr4:7386089..7388164,2	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10030378	0.84[EUR][1000 genomes]
rs12502663	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12503542	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12503600	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12503989	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12506114	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12511814	0.85[EUR][1000 genomes]
rs12511870	0.85[EUR][1000 genomes]
rs2336101	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs28451313	0.81[EUR][1000 genomes]
rs3864206	0.86[EUR][1000 genomes]
rs3864208	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3864209	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3864210	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3864211	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3864212	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3864213	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3864214	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3864215	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3889812	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3889813	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4044947	0.85[EUR][1000 genomes]
rs4434253	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4493532	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4502682	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4524381	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4524382	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4689712	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4689713	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs5026892	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs57975761	0.81[EUR][1000 genomes]
rs6815263	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs6817324	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6829740	0.85[EUR][1000 genomes]
rs6842190	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6847211	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6855995	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34033	chr4:6973270-7390621	Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv432556	chr4:7174993-7391948	Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
3	nsv916610	chr4:7238883-7731946	Bivalent Enhancer Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv593569	chr4:7291363-7626136	Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
5	nsv1011547	chr4:7318232-7637410	Active TSS ZNF genes & repeats Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
6	nsv537017	chr4:7318232-7637410	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
7	nsv1003679	chr4:7319111-7449262	Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv1012289	chr4:7361958-7395292	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv469758	chr4:7370083-7546250	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:7368200-7383000	Weak transcription	Right Atrium	heart
2	chr4:7373000-7383400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr4:7377600-7381000	Weak transcription	Fetal Thymus	thymus
4	chr4:7378000-7384000	Weak transcription	Fetal Brain Female	brain
5	chr4:7379200-7381000	Weak transcription	Brain Hippocampus Middle	brain
6	chr4:7379200-7381200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr4:7379200-7381800	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr4:7379200-7382200	Weak transcription	Ovary	ovary
9	chr4:7379400-7380800	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr4:7379400-7381200	Weak transcription	Brain Substantia Nigra	brain
11	chr4:7379600-7380600	Weak transcription	Fetal Stomach	stomach
12	chr4:7379600-7380800	Weak transcription	Brain Angular Gyrus	brain
13	chr4:7379600-7380800	Weak transcription	Brain Cingulate Gyrus	brain
14	chr4:7379600-7381000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr4:7379600-7381000	Weak transcription	Brain Anterior Caudate	brain
16	chr4:7379800-7381400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr4:7380000-7381400	Weak transcription	Brain Germinal Matrix	brain
18	chr4:7380000-7382200	Weak transcription	Fetal Heart	heart

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