Variant report

Variant	rs28901620
Chromosome Location	chr2:234843917-234843918
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10432393	0.84[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10490015	0.86[CHB][hapmap];1.00[EUR][1000 genomes]
rs11563061	0.87[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11563217	0.86[CHB][hapmap];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11563219	1.00[EUR][1000 genomes]
rs11563220	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs28901602	1.00[EUR][1000 genomes]
rs28901604	1.00[EUR][1000 genomes]
rs28901605	1.00[EUR][1000 genomes]
rs28901607	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs28901609	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs28901644	0.86[CHB][hapmap];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28901648	0.86[CHB][hapmap];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28902176	0.86[CHB][hapmap];1.00[EUR][1000 genomes]
rs28902188	1.00[EUR][1000 genomes]
rs7564831	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[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	nsv1013712	chr2:234558457-235495825	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv532476	chr2:234595695-235134381	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv876024	chr2:234842650-234856421	Bivalent Enhancer Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:234841000-234844800	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr2:234841800-234847600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr2:234843000-234845400	Enhancers	Breast Myoepithelial Primary Cells	Breast

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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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