Variant report

Variant	rs58009573
Chromosome Location	chr1:172037671-172037672
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10465518	1.00[EUR][1000 genomes]
rs12059659	1.00[EUR][1000 genomes]
rs13353039	1.00[EUR][1000 genomes]
rs16843652	1.00[EUR][1000 genomes]
rs16843714	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16843740	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16843770	1.00[EUR][1000 genomes]
rs16843814	1.00[EUR][1000 genomes]
rs16843874	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56813784	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56888227	1.00[EUR][1000 genomes]
rs58346902	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs59671783	1.00[EUR][1000 genomes]
rs60165186	1.00[EUR][1000 genomes]
rs60893096	1.00[EUR][1000 genomes]
rs61510803	1.00[EUR][1000 genomes]
rs7539162	1.00[EUR][1000 genomes]
rs7541042	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532342	chr1:171922237-172133785	Weak transcription Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	62 gene(s)	inside rSNPs	diseases
2	nsv3532	chr1:171997451-172042351	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	2 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	chr1:172010600-172051400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:172011400-172037800	Weak transcription	Ovary	ovary
3	chr1:172015000-172042600	Weak transcription	Fetal Brain Female	brain
4	chr1:172016600-172037800	Weak transcription	Brain Substantia Nigra	brain
5	chr1:172020200-172038800	Weak transcription	Brain Angular Gyrus	brain
6	chr1:172020200-172040600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr1:172024600-172040400	Weak transcription	Brain Anterior Caudate	brain
8	chr1:172024800-172040600	Weak transcription	Brain Germinal Matrix	brain
9	chr1:172025200-172037800	Weak transcription	Brain Hippocampus Middle	brain
10	chr1:172025200-172040600	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr1:172025400-172037800	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr1:172035800-172040400	Weak transcription	Left Ventricle	heart
13	chr1:172037000-172038200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr1:172037400-172037800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr1:172037600-172038000	Enhancers	Primary hematopoietic stem cells short term culture	blood
16	chr1:172037600-172038200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
17	chr1:172037600-172041400	Enhancers	Brain Cingulate Gyrus	brain

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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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