Variant report

Variant	rs1949069
Chromosome Location	chr4:143942421-143942422
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	chr4:143941542..143943982-chr4:143948161..143949763,2	MCF-7	breast:

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10015475	0.92[ASN][1000 genomes]
rs1104696	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1104697	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1105832	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11721635	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11722352	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11728404	0.94[ASN][1000 genomes]
rs11735113	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11736977	0.83[ASN][1000 genomes]
rs11933570	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12505602	0.94[ASN][1000 genomes]
rs12507884	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12640644	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12644403	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13108497	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13115992	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13122758	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13125763	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13126430	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13126432	0.90[ASN][1000 genomes]
rs13134924	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13139088	0.83[ASN][1000 genomes]
rs13148926	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13151714	0.90[ASN][1000 genomes]
rs1355259	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs1510141	0.94[ASN][1000 genomes]
rs1510142	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1588410	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1588411	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17017174	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17017180	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17017183	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17017184	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1949068	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28623359	0.82[ASN][1000 genomes]
rs2874933	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28817081	0.92[ASN][1000 genomes]
rs35907067	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3967114	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4054820	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4074924	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4074925	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4074926	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4076451	0.83[ASN][1000 genomes]
rs4077294	0.83[ASN][1000 genomes]
rs4234880	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4234884	0.83[ASN][1000 genomes]
rs4327439	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4374584	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4455368	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4473614	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4524335	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4619836	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4690713	0.83[ASN][1000 genomes]
rs4690749	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4690752	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4690755	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4690757	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4690758	0.90[ASN][1000 genomes]
rs4690759	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4690760	0.90[ASN][1000 genomes]
rs66633688	0.83[ASN][1000 genomes]
rs6821582	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6821603	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6821648	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7657896	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7676152	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7676293	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7679943	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7685713	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7685774	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7692572	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7696633	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs955722	0.94[ASN][1000 genomes]
rs9985890	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9985893	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9991766	0.95[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830102	chr4:143820268-143953611	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1033285	chr4:143884298-144010784	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
3	nsv537288	chr4:143884298-144010784	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
4	nsv880176	chr4:143929235-144027729	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:143932800-143948000	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr4:143941200-143947800	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr4:143941400-143943200	Enhancers	GM12878-XiMat	blood
4	chr4:143941600-143944400	Enhancers	Monocytes-CD14+_RO01746	blood
5	chr4:143941800-143942600	Enhancers	Primary B cells from peripheral blood	blood
6	chr4:143942000-143942600	Enhancers	Adipose Nuclei	Adipose
7	chr4:143942200-143942600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
8	chr4:143942200-143942600	Enhancers	Fetal Stomach	stomach
9	chr4:143942200-143944400	Weak transcription	Spleen	Spleen

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