Variant report

Variant	rs4409680
Chromosome Location	chr1:58125563-58125564
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs17116136	1.00[AFR][1000 genomes]
rs4636488	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56323134	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60982032	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs74075803	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74075813	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs74075814	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs74075822	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs74077735	1.00[AFR][1000 genomes]
rs74077743	1.00[AFR][1000 genomes]
rs74077744	1.00[AFR][1000 genomes]
rs74077745	1.00[AFR][1000 genomes]
rs7540673	1.00[AFR][1000 genomes];1.00[AMR][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	nsv817216	chr1:57801783-58130775	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1015057	chr1:57976993-58793962	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv530017	chr1:58002290-58669736	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:58125000-58128400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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