Variant report

Variant	rs2490164
Chromosome Location	chr6:48803538-48803539
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1938173	0.95[AFR][1000 genomes]
rs1938201	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1938211	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1938212	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2263337	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4560644	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4576245	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4715105	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6458632	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6921107	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6922928	0.93[EUR][1000 genomes]
rs6941368	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73477796	0.93[EUR][1000 genomes]
rs9349457	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9349458	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9395412	1.00[EUR][1000 genomes]
rs9395416	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949690	chr6:48595821-49289855	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 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	chr6:48797400-48806800	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr6:48801000-48804600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr6:48802200-48803800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr6:48802200-48803800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr6:48802600-48803800	Enhancers	HMEC	breast
6	chr6:48802600-48805200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr6:48802800-48803600	Enhancers	Hela-S3	cervix
8	chr6:48802800-48803800	Enhancers	HUVEC	blood vessel
9	chr6:48802800-48804000	Enhancers	NHLF	lung
10	chr6:48802800-48804000	Enhancers	Osteobl	bone
11	chr6:48803000-48803600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr6:48803000-48803600	Enhancers	Adipose Nuclei	Adipose
13	chr6:48803000-48803800	Enhancers	NHDF-Ad	bronchial
14	chr6:48803000-48804000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr6:48803000-48804200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr6:48803000-48804200	Enhancers	A549	lung

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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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