Variant report

Variant	rs16828839
Chromosome Location	chr3:177699695-177699696
allele	A/G
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]
rs11919642	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs16828802	1.00[CEU][hapmap];0.82[YRI][hapmap];0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16828845	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2068607	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2068608	1.00[CEU][hapmap];0.85[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs57504101	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs57731768	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs58265684	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61640172	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6774374	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs727335	1.00[CEU][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs737554	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7622711	0.89[AMR][1000 genomes];0.92[EUR][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	nsv931055	chr3:177229521-177889872	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv829805	chr3:177662113-177805003	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv997975	chr3:177664921-177719623	Enhancers Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:177695600-177700600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr3:177696400-177699800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr3:177697400-177701600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr3:177698000-177699800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr3:177698200-177700600	Weak transcription	Primary hematopoietic stem cells	blood
6	chr3:177698800-177699800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr3:177698800-177701400	Enhancers	NHLF	lung
8	chr3:177699200-177700800	Enhancers	Muscle Satellite Cultured Cells	--
9	chr3:177699400-177700600	Enhancers	HSMM	muscle
10	chr3:177699400-177700800	Enhancers	NH-A	brain
11	chr3:177699400-177700800	Enhancers	Osteobl	bone
12	chr3:177699400-177701000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr3:177699400-177701400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr3:177699400-177701600	Enhancers	NHDF-Ad	bronchial
15	chr3:177699600-177700000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr3:177699600-177700400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	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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