Variant report

Variant	rs6847800
Chromosome Location	chr4:158932876-158932877
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:158927162..158929006-chr4:158931620..158933228,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10003459	0.92[CEU][hapmap];0.93[CHB][hapmap];0.91[CHD][hapmap];0.86[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap]
rs10005901	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10027000	0.94[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10049927	0.96[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13137826	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28635553	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4072170	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4077776	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4077777	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4388135	0.85[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap]
rs4487405	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4504305	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4521391	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4574459	0.92[CEU][hapmap];0.93[CHB][hapmap];0.90[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4615226	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4631100	0.92[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4691447	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4691460	0.86[CHB][hapmap]
rs6536298	0.82[CHD][hapmap];0.85[TSI][hapmap]
rs66490968	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6814979	0.88[CEU][hapmap];0.93[CHB][hapmap];0.86[CHD][hapmap];0.83[GIH][hapmap];0.83[MEX][hapmap];0.84[TSI][hapmap]
rs6830475	0.86[CHB][hapmap]
rs6833295	0.85[CEU][hapmap];0.86[CHB][hapmap]
rs6843728	0.92[CEU][hapmap];0.93[CHB][hapmap];0.91[CHD][hapmap];0.83[GIH][hapmap];0.88[JPT][hapmap];0.95[TSI][hapmap]
rs6848159	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7657303	0.96[CEU][hapmap];0.93[CHB][hapmap];0.91[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7673290	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7682867	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7692254	0.80[CEU][hapmap];0.93[CHB][hapmap];0.86[CHD][hapmap];0.83[MEX][hapmap];0.86[TSI][hapmap]
rs9968557	0.88[CEU][hapmap];0.93[CHB][hapmap];0.91[CHD][hapmap];0.86[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap]
rs9991381	0.97[AMR][1000 genomes];0.95[EUR][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	nsv993476	chr4:158550643-159202015	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1030124	chr4:158758675-159251140	Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv881288	chr4:158891733-159028080	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:158923800-158939400	Weak transcription	HepG2	liver
2	chr4:158926000-158938800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr4:158927600-158933600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr4:158928000-158933200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr4:158928400-158936200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr4:158929800-158933000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr4:158929800-158933000	Enhancers	Ovary	ovary
8	chr4:158930200-158933000	Weak transcription	Monocytes-CD14+_RO01746	blood
9	chr4:158930200-158934600	Weak transcription	HSMM	muscle
10	chr4:158930200-158934600	Weak transcription	Osteobl	bone
11	chr4:158930200-158937400	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr4:158930200-158940800	Weak transcription	Rectal Smooth Muscle	rectum
13	chr4:158930400-158934400	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr4:158930400-158934400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr4:158930400-158934600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr4:158930400-158935400	Weak transcription	Brain Anterior Caudate	brain
17	chr4:158930400-158936000	Weak transcription	HSMMtube	muscle
18	chr4:158930400-158940800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr4:158930600-158934400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr4:158930600-158937600	Weak transcription	Brain Substantia Nigra	brain
21	chr4:158930600-158940800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr4:158930800-158941400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr4:158931000-158934200	Weak transcription	HUVEC	blood vessel
24	chr4:158931000-158934600	Weak transcription	HMEC	breast
25	chr4:158931800-158934600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr4:158932200-158933000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr4:158932200-158934400	Weak transcription	NH-A	brain
28	chr4:158932600-158933000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr4:158932600-158933000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr4:158932600-158933000	Enhancers	Primary monocytes fromperipheralblood	blood
31	chr4:158932600-158941400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr4:158932800-158933600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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