Variant report

Variant	rs28438967
Chromosome Location	chr10:52852052-52852053
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]
rs10218997	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10995567	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10995590	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12247631	0.95[AMR][1000 genomes]
rs12253781	0.95[AMR][1000 genomes]
rs12264657	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12265235	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2339626	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2339670	0.95[AMR][1000 genomes]
rs2339674	0.83[AFR][1000 genomes]
rs2879545	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74133958	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7910047	0.82[AFR][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	nsv831873	chr10:52710610-52899540	Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv895394	chr10:52793177-52866503	Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1036645	chr10:52804961-53159076	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52840400-52852200	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr10:52843600-52856200	Weak transcription	Aorta	Aorta
3	chr10:52844000-52852200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr10:52844000-52877200	Weak transcription	Fetal Stomach	stomach
5	chr10:52849400-52853200	Enhancers	Skeletal Muscle Male	skeletal muscle
6	chr10:52849600-52853800	Enhancers	Skeletal Muscle Female	skeletal muscle
7	chr10:52850200-52852200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr10:52850200-52852200	Weak transcription	Psoas Muscle	Psoas
9	chr10:52850200-52852200	Weak transcription	NHDF-Ad	bronchial
10	chr10:52850200-52863400	Weak transcription	NHLF	lung
11	chr10:52851600-52852200	Enhancers	Fetal Heart	heart
12	chr10:52851600-52852200	Enhancers	Stomach Smooth Muscle	stomach
13	chr10:52851600-52852400	Enhancers	Duodenum Smooth Muscle	Duodenum
14	chr10:52851600-52852800	Enhancers	Colon Smooth Muscle	Colon
15	chr10:52851800-52852800	Enhancers	Rectal Smooth Muscle	rectum
16	chr10:52852000-52853000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr10:52852000-52853200	Enhancers	Brain Substantia Nigra	brain

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Input of quick search could be:

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

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