Variant report

Variant	rs2489649
Chromosome Location	chr1:209500032-209500033
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	chr1:209499883..209502350-chr1:209641067..209642631,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1021993	0.84[AFR][1000 genomes]
rs1027821	0.84[AFR][1000 genomes]
rs1027823	0.84[AFR][1000 genomes]
rs1395749	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1395750	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1507341	0.82[AFR][1000 genomes]
rs1542981	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1553623	0.83[AFR][1000 genomes]
rs17188128	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17188142	1.00[CHB][hapmap];0.82[JPT][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2245283	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2245287	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2489650	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2660637	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2660642	1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs2660643	0.82[AFR][1000 genomes]
rs2843169	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs56375933	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6700119	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72756413	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72756439	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72756445	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs925077	0.87[AFR][1000 genomes]
rs937874	0.86[AFR][1000 genomes]
rs950890	0.82[AFR][1000 genomes]
rs976940	0.83[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832481	chr1:209371276-209540333	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv832492	chr1:209383771-209589312	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 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	chr1:209493200-209500200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr1:209496600-209500800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
3	chr1:209497000-209500200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr1:209497000-209500400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr1:209498600-209500600	Enhancers	Fetal Brain Male	brain
6	chr1:209499400-209500200	Weak transcription	Esophagus	oesophagus
7	chr1:209499400-209500400	Weak transcription	Fetal Muscle Leg	muscle
8	chr1:209499400-209501200	Weak transcription	Colon Smooth Muscle	Colon
9	chr1:209500000-209501400	Enhancers	Fetal Brain Female	brain

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