Variant report

Variant	rs1425531
Chromosome Location	chr4:143426031-143426032
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:143391887..143396825-chr4:143425228..143429441,6	MCF-7	breast:
2	chr4:143388381..143398737-chr4:143415738..143428678,26	MCF-7	breast:
3	chr4:143424625..143426969-chr4:143428786..143431157,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000109452	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10008498	0.83[AMR][1000 genomes]
rs10011782	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12108640	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1391099	0.88[ASW][hapmap];0.92[CEU][hapmap];0.90[GIH][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];0.86[TSI][hapmap];0.92[AMR][1000 genomes]
rs1425533	1.00[CEU][hapmap];0.84[GIH][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes]
rs1425536	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs1425537	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1489581	0.92[CEU][hapmap];0.90[GIH][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.85[AMR][1000 genomes]
rs1593360	0.86[YRI][hapmap]
rs17016163	0.92[CEU][hapmap];0.90[GIH][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.83[AMR][1000 genomes]
rs17016175	0.92[CEU][hapmap];0.94[GIH][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.85[AMR][1000 genomes]
rs17016306	1.00[CEU][hapmap];0.81[GIH][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes]
rs1817970	0.84[CEU][hapmap];0.90[AMR][1000 genomes]
rs1834391	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2113996	0.92[EUR][1000 genomes]
rs2113997	1.00[CEU][hapmap];0.84[GIH][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs2322795	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2874841	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2874865	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28822497	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3844178	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs3863128	0.89[AMR][1000 genomes]
rs3913163	0.92[CEU][hapmap];0.94[GIH][hapmap];1.00[MEX][hapmap];0.81[TSI][hapmap];0.85[AMR][1000 genomes]
rs4956444	0.85[AMR][1000 genomes]
rs4975308	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs60924405	0.92[EUR][1000 genomes]
rs713071	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7672965	0.92[CEU][hapmap];0.86[TSI][hapmap]
rs9308151	0.90[AMR][1000 genomes]
rs976564	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs979511	0.84[MEX][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	nsv498005	chr4:142515689-143502988	Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:143422400-143426600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr4:143422600-143427400	Weak transcription	Fetal Heart	heart
3	chr4:143423200-143427600	Weak transcription	Psoas Muscle	Psoas
4	chr4:143425600-143429600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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