Variant report

Variant	rs16865887
Chromosome Location	chr2:178743713-178743714
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10497485	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10497486	1.00[AMR][1000 genomes]
rs1370658	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1527292	1.00[AMR][1000 genomes]
rs16865829	1.00[AMR][1000 genomes]
rs16865833	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16865835	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16865838	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16865839	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16865844	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16865848	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16865850	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16865852	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16865872	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16865907	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16865909	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16865912	1.00[AFR][1000 genomes]
rs16865918	1.00[AMR][1000 genomes]
rs16865933	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]

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	nsv999086	chr2:178262348-178773585	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv536055	chr2:178262348-178773585	Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv533377	chr2:178718801-178963463	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1007579	chr2:178729330-178890946	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:178734400-178744800	Weak transcription	Psoas Muscle	Psoas
2	chr2:178739400-178744800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr2:178739600-178744800	Weak transcription	HepG2	liver
4	chr2:178740000-178744800	Weak transcription	Fetal Intestine Small	intestine
5	chr2:178741000-178759200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr2:178741600-178748000	Enhancers	Liver	Liver
7	chr2:178742600-178743800	Weak transcription	Fetal Heart	heart
8	chr2:178742600-178744800	Weak transcription	Fetal Intestine Large	intestine
9	chr2:178743400-178744800	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr2:178743400-178746200	Weak transcription	Skeletal Muscle Male	skeletal muscle

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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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