Variant report

Variant	rs9475059
Chromosome Location	chr6:54753885-54753886
allele	A/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:16)

rs_ID	r²[population]
rs16886169	0.90[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16886182	0.92[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1948818	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2143797	0.91[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58327945	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9464161	0.92[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9464162	0.92[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9464166	0.83[YRI][hapmap]
rs9475057	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9475060	0.82[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9475061	0.90[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9475062	0.92[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9475064	0.92[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9475067	0.84[AFR][1000 genomes]
rs9475072	0.84[YRI][hapmap];0.84[AFR][1000 genomes]
rs9475073	0.83[YRI][hapmap];0.84[AFR][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	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2763553	chr6:54687979-54820487	Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54737600-54755800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr6:54739800-54763000	Weak transcription	Small Intestine	intestine
3	chr6:54744200-54757600	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr6:54744400-54761000	Weak transcription	Duodenum Mucosa	Duodenum
5	chr6:54744800-54755800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr6:54746200-54755200	Weak transcription	NHEK	skin
7	chr6:54746200-54755600	Weak transcription	HMEC	breast
8	chr6:54746400-54757800	Weak transcription	Hela-S3	cervix
9	chr6:54747600-54756000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr6:54752200-54759000	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr6:54752400-54758600	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr6:54753400-54754200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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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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