Variant report

Variant	rs6838663
Chromosome Location	chr4:143740940-143740941
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	chr4:143740384..143741938-chr4:143748371..143749871,2	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1031104	0.90[CHB][hapmap]
rs10857399	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs11736709	0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11939835	0.81[ASN][1000 genomes]
rs11943397	0.81[CHB][hapmap]
rs1441411	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1441417	0.91[CHB][hapmap];0.93[JPT][hapmap];0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1441418	0.88[CEU][hapmap];0.82[JPT][hapmap]
rs1443187	0.86[CHB][hapmap]
rs1444949	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17016768	1.00[CHB][hapmap]
rs1899565	0.81[CHB][hapmap]
rs1992652	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2120158	0.81[CHB][hapmap]
rs2218240	0.83[CEU][hapmap]
rs28416530	0.81[ASN][1000 genomes]
rs331945	1.00[CHB][hapmap]
rs4690728	0.83[CEU][hapmap]
rs4690729	0.93[ASN][1000 genomes]
rs4690730	0.81[ASN][1000 genomes]
rs58445560	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60263370	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6537129	1.00[CHB][hapmap];0.87[JPT][hapmap];0.93[ASN][1000 genomes]
rs6811022	0.88[CEU][hapmap];0.81[JPT][hapmap]
rs6813785	0.81[ASN][1000 genomes]
rs6822703	0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs6823627	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6828896	0.93[ASN][1000 genomes]
rs6830053	0.80[CHB][hapmap]
rs6839158	0.96[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6846609	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72728681	0.84[ASN][1000 genomes]
rs72728694	0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs72728700	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72730409	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73850583	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7656375	1.00[CHB][hapmap];0.93[JPT][hapmap];0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7663475	1.00[CHB][hapmap];0.87[JPT][hapmap];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7666140	1.00[CHB][hapmap]
rs7668263	0.81[ASN][1000 genomes]
rs7685997	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9994364	0.88[CEU][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880174	chr4:143639498-143848024	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:143732000-143744600	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr4:143732600-143745000	Weak transcription	Left Ventricle	heart
3	chr4:143732600-143749600	Weak transcription	Right Ventricle	heart
4	chr4:143738400-143741200	Enhancers	Fetal Heart	heart
5	chr4:143738800-143742400	Weak transcription	Rectal Smooth Muscle	rectum
6	chr4:143739000-143741800	Weak transcription	Colon Smooth Muscle	Colon
7	chr4:143739200-143741800	Weak transcription	A549	lung
8	chr4:143739600-143741600	Enhancers	Dnd41	blood
9	chr4:143739600-143743000	Weak transcription	Aorta	Aorta
10	chr4:143740000-143741200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr4:143740200-143741000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr4:143740200-143743000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr4:143740200-143765800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr4:143740600-143741000	Weak transcription	Primary hematopoietic stem cells	blood
15	chr4:143740600-143745200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr4:143740800-143742200	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
17	chr4:143740800-143745400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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