Variant report

Variant	rs59889558
Chromosome Location	chr6:28895695-28895696
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs16894407	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2148008	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs41424052	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57564128	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58640431	1.00[ASN][1000 genomes]
rs61270555	1.00[ASN][1000 genomes]
rs61312903	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv883518	chr6:28792477-28911802	Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	56 gene(s)	inside rSNPs	diseases
2	nsv883519	chr6:28792477-28936556	Transcr. at gene 5' and 3' Genic enhancers Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	57 gene(s)	inside rSNPs	diseases
3	nsv427748	chr6:28831888-28999434	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	62 gene(s)	inside rSNPs	diseases
4	nsv830622	chr6:28861667-29015804	Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	59 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28892600-28895800	Weak transcription	Duodenum Mucosa	Duodenum
2	chr6:28892800-28895800	Weak transcription	Fetal Intestine Small	intestine
3	chr6:28892800-28896000	Weak transcription	Fetal Intestine Large	intestine
4	chr6:28892800-28897600	Weak transcription	Primary monocytes fromperipheralblood	blood
5	chr6:28892800-28897600	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr6:28893000-28898200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:28893400-28895800	Weak transcription	HepG2	liver
8	chr6:28895200-28895800	Enhancers	Primary hematopoietic stem cells	blood
9	chr6:28895400-28895800	Enhancers	Primary B cells from cord blood	blood
10	chr6:28895400-28895800	Enhancers	K562	blood
11	chr6:28895600-28895800	Enhancers	Fetal Kidney	kidney
12	chr6:28895600-28896000	Enhancers	Primary neutrophils fromperipheralblood	blood
13	chr6:28895600-28896000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr6:28895600-28896200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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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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