Variant report

Variant	rs6840204
Chromosome Location	chr4:78121828-78121829
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	chr4:77991930..77994376-chr4:78120322..78122333,2	K562	blood:
2	chr4:78077855..78079830-chr4:78121652..78124230,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000138764	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs17002420	1.00[MEX][hapmap]
rs17002421	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17002448	1.00[EUR][1000 genomes]
rs17002449	1.00[EUR][1000 genomes]
rs17002454	0.83[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs17002456	0.83[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs17002462	1.00[GIH][hapmap];1.00[TSI][hapmap]
rs17002482	1.00[MEX][hapmap]
rs2009261	1.00[MEX][hapmap]
rs2015393	1.00[EUR][1000 genomes]
rs2161355	0.89[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28669186	1.00[EUR][1000 genomes]
rs41375744	1.00[MEX][hapmap]
rs41495248	1.00[MEX][hapmap]
rs4252775	1.00[MEX][hapmap]
rs4252934	1.00[MEX][hapmap]
rs4557282	1.00[MEX][hapmap]
rs56752313	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60329200	1.00[EUR][1000 genomes]
rs6532891	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6811629	1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs6812471	1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs6817538	1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs6817626	1.00[MEX][hapmap]
rs6818356	1.00[MEX][hapmap]
rs6820366	1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs6829872	1.00[EUR][1000 genomes]
rs6854976	1.00[EUR][1000 genomes]
rs72863245	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs72863263	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72863275	1.00[EUR][1000 genomes]
rs72863276	1.00[EUR][1000 genomes]
rs72863279	1.00[EUR][1000 genomes]
rs72863282	1.00[EUR][1000 genomes]
rs72863284	1.00[EUR][1000 genomes]
rs72863287	1.00[EUR][1000 genomes]
rs7667891	1.00[MEX][hapmap]
rs7697954	0.82[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[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	nsv1000730	chr4:78109138-78210296	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1011551	chr4:78120872-78204224	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1012298	chr4:78120872-78255427	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:78116400-78124600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
2	chr4:78118400-78123000	Weak transcription	Primary T cells from cord blood	blood
3	chr4:78118800-78124600	Weak transcription	Fetal Thymus	thymus
4	chr4:78119200-78124400	Weak transcription	Primary B cells from cord blood	blood
5	chr4:78119200-78124600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr4:78120400-78123000	Enhancers	HMEC	breast
7	chr4:78120400-78124800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr4:78120600-78122800	Enhancers	NHEK	skin
9	chr4:78120600-78125200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr4:78121000-78123600	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr4:78121200-78123800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr4:78121400-78122400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr4:78121600-78123600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr4:78121600-78124600	Weak transcription	Fetal Muscle Leg	muscle

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