Variant report

Variant	rs1553076
Chromosome Location	chr4:28280508-28280509
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:28278989..28281392-chr4:28295542..28298353,2	MCF-7	breast:
2	chr4:28279196..28281864-chr4:28281921..28283988,2	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10003761	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12648913	0.95[AFR][1000 genomes]
rs13130292	0.95[AFR][1000 genomes]
rs1497714	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1603636	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2088452	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2309716	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2309735	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4692048	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6848254	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7661220	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7690998	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1005382	chr4:28157180-28403800	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv878775	chr4:28163856-28473048	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1000514	chr4:28192982-28445194	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv878777	chr4:28208093-28343903	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv878778	chr4:28237783-28343903	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv1012210	chr4:28246489-28419673	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv878779	chr4:28264394-28343903	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv967981	chr4:28272442-28281577	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv1010133	chr4:28273244-28642942	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
10	nsv878780	chr4:28273999-28341254	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv1014938	chr4:28277683-28642942	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:28279200-28282600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:28279400-28280600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr4:28279400-28282400	Enhancers	NHEK	skin
4	chr4:28279600-28281400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr4:28279600-28282000	Enhancers	Brain Hippocampus Middle	brain
6	chr4:28279600-28282000	Enhancers	Placenta Amnion	Placenta Amnion
7	chr4:28279600-28282200	Enhancers	HMEC	breast
8	chr4:28279600-28282400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr4:28279600-28282600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr4:28279800-28280800	Enhancers	Muscle Satellite Cultured Cells	--
11	chr4:28279800-28281000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr4:28279800-28281800	Enhancers	Brain Cingulate Gyrus	brain
13	chr4:28280000-28280600	Enhancers	Brain Angular Gyrus	brain
14	chr4:28280000-28282600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr4:28280000-28282600	Enhancers	Brain Anterior Caudate	brain
16	chr4:28280200-28280600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr4:28280200-28281200	Enhancers	ES-I3 Cell Line	embryonic stem cell
18	chr4:28280200-28281200	Enhancers	Brain Substantia Nigra	brain
19	chr4:28280200-28281400	Enhancers	Brain Inferior Temporal Lobe	brain
20	chr4:28280400-28280600	Enhancers	iPS-15b Cell Line	embryonic stem cell
21	chr4:28280400-28280800	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr4:28280400-28280800	Enhancers	HUES6 Cell Line	embryonic stem cell
23	chr4:28280400-28280800	Enhancers	Pancreatic Islets	Pancreatic Islet

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