Variant report

Variant	rs12498787
Chromosome Location	chr4:85945914-85945915
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10029496	0.82[EUR][1000 genomes]
rs10856851	0.84[EUR][1000 genomes]
rs10856852	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11097026	0.94[CEU][hapmap];0.83[EUR][1000 genomes]
rs11097030	0.94[ASN][1000 genomes]
rs11730981	0.86[EUR][1000 genomes]
rs11732309	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11732347	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12498637	0.85[EUR][1000 genomes]
rs12503215	0.87[EUR][1000 genomes]
rs12503330	0.83[EUR][1000 genomes]
rs12506456	0.86[EUR][1000 genomes]
rs12510410	0.88[EUR][1000 genomes]
rs12640378	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12640811	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12648852	0.86[EUR][1000 genomes]
rs13109918	0.86[EUR][1000 genomes]
rs13114115	0.83[EUR][1000 genomes]
rs13124246	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13141322	0.84[EUR][1000 genomes]
rs13148035	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1508670	0.85[JPT][hapmap]
rs17009341	0.94[CEU][hapmap];0.95[JPT][hapmap];0.86[EUR][1000 genomes]
rs2046404	0.95[CEU][hapmap];0.80[CHB][hapmap];0.95[JPT][hapmap];0.83[EUR][1000 genomes]
rs2869216	0.81[JPT][hapmap]
rs28754901	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34239067	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34314581	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4131745	0.83[EUR][1000 genomes]
rs4287999	0.88[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs4376130	0.88[EUR][1000 genomes]
rs4383611	0.90[JPT][hapmap]
rs4470615	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4533765	0.84[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4590017	0.84[CEU][hapmap];0.90[JPT][hapmap]
rs4624645	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4626191	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4634212	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56094216	0.83[EUR][1000 genomes]
rs56194765	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6531777	0.94[CEU][hapmap];0.95[JPT][hapmap];0.87[EUR][1000 genomes]
rs6531782	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6531783	0.83[CEU][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes]
rs66965560	0.82[EUR][1000 genomes]
rs6833661	0.84[EUR][1000 genomes]
rs6847811	0.88[EUR][1000 genomes]
rs72664952	0.85[EUR][1000 genomes]
rs7654035	0.95[CEU][hapmap];0.80[CHB][hapmap];0.95[JPT][hapmap];0.87[EUR][1000 genomes]
rs7661609	0.94[CEU][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7663580	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7675324	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7682896	0.81[EUR][1000 genomes]
rs7692223	0.84[CEU][hapmap];0.91[JPT][hapmap]
rs7694949	0.94[CEU][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7699226	0.94[CEU][hapmap];0.95[JPT][hapmap];0.88[EUR][1000 genomes]
rs9684737	0.87[EUR][1000 genomes]
rs9790649	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][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	esv1829655	chr4:85577491-86292692	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv519588	chr4:85762385-86591202	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	esv3367963	chr4:85911017-86246036	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:85936200-85946000	Weak transcription	Ovary	ovary
2	chr4:85945400-85946400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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