Variant report

Variant	rs17398230
Chromosome Location	chr1:161237892-161237893
allele	A/G
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:15)

rs_ID	r²[population]
rs10494346	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10494349	1.00[ASW][hapmap]
rs12752121	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12753774	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12754024	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12754503	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17398257	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34339669	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34832672	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34995122	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35623108	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs36001187	0.83[EUR][1000 genomes]
rs4131826	1.00[YRI][hapmap]
rs71639054	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs71639055	1.00[AFR][1000 genomes];0.83[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	nsv530077	chr1:160836448-161284904	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
2	nsv432986	chr1:161221133-161673682	Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
3	nsv520253	chr1:161234623-161237892	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:161235200-161238000	Enhancers	Fetal Stomach	stomach
2	chr1:161236600-161238000	Enhancers	Primary hematopoietic stem cells short term culture	blood
3	chr1:161236600-161238200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr1:161236800-161238000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr1:161237000-161238000	Enhancers	GM12878-XiMat	blood
6	chr1:161237000-161238200	Enhancers	Primary hematopoietic stem cells	blood
7	chr1:161237000-161238800	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr1:161237200-161238200	Enhancers	Primary B cells from peripheral blood	blood
9	chr1:161237200-161238200	Enhancers	Monocytes-CD14+_RO01746	blood
10	chr1:161237200-161238800	Enhancers	Placenta	Placenta
11	chr1:161237400-161242800	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr1:161237400-161242800	Weak transcription	Rectal Smooth Muscle	rectum
13	chr1:161237400-161250600	Weak transcription	Pancreas	Pancrea

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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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