Variant report

Variant	rs28459962
Chromosome Location	chr4:89786282-89786283
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10019681	0.80[EUR][1000 genomes]
rs10033824	0.88[EUR][1000 genomes]
rs12648534	0.81[EUR][1000 genomes]
rs28529050	0.80[EUR][1000 genomes]
rs28542213	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3806788	0.86[ASN][1000 genomes]
rs4693971	0.92[AFR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4693973	0.93[EUR][1000 genomes]
rs4693975	0.80[EUR][1000 genomes]
rs4693976	0.80[EUR][1000 genomes]
rs58281712	0.80[EUR][1000 genomes]
rs62308744	0.93[EUR][1000 genomes]
rs62308745	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62308746	0.80[EUR][1000 genomes]
rs62310476	0.80[EUR][1000 genomes]
rs7668636	0.80[EUR][1000 genomes]
rs7687539	0.80[EUR][1000 genomes]
rs7695732	0.80[EUR][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	nsv470051	chr4:89644931-90643144	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1009354	chr4:89725914-89985155	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:89768800-89789400	Weak transcription	Fetal Intestine Small	intestine
2	chr4:89771000-89803200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr4:89780800-89800600	Weak transcription	Pancreas	Pancrea
4	chr4:89781000-89788200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr4:89781800-89786400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr4:89782000-89786600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr4:89782000-89786800	Weak transcription	Stomach Smooth Muscle	stomach
8	chr4:89782200-89786800	Weak transcription	Placenta	Placenta
9	chr4:89782400-89801200	Weak transcription	Ovary	ovary
10	chr4:89782600-89786800	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr4:89783800-89787000	Weak transcription	Colon Smooth Muscle	Colon
12	chr4:89785000-89786600	Weak transcription	Fetal Stomach	stomach
13	chr4:89785000-89786800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr4:89785400-89786400	Weak transcription	Fetal Lung	lung
15	chr4:89785800-89786800	Enhancers	Muscle Satellite Cultured Cells	--
16	chr4:89785800-89788800	Enhancers	HMEC	breast
17	chr4:89785800-89789000	Enhancers	NHEK	skin
18	chr4:89786000-89786400	Flanking Active TSS	HUVEC	blood vessel
19	chr4:89786000-89786600	Enhancers	A549	lung
20	chr4:89786000-89786800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr4:89786000-89786800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr4:89786000-89786800	Enhancers	NHLF	lung
23	chr4:89786000-89786800	Enhancers	Osteobl	bone
24	chr4:89786000-89787000	Enhancers	Hela-S3	cervix
25	chr4:89786000-89787000	Enhancers	NH-A	brain
26	chr4:89786000-89787600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr4:89786000-89788000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr4:89786000-89788800	Enhancers	NHDF-Ad	bronchial
29	chr4:89786200-89788200	Weak transcription	HSMM	muscle

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