Variant report

Variant	rs4555709
Chromosome Location	chr4:54026961-54026962
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1481822	1.00[YRI][hapmap]
rs17082492	1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs17082557	1.00[YRI][hapmap]
rs1962230	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28661921	0.88[AFR][1000 genomes]
rs28704944	0.90[AFR][1000 genomes]
rs28829603	0.80[AFR][1000 genomes]
rs28887768	0.89[AFR][1000 genomes]
rs35912570	0.90[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs55744909	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs55926930	0.98[AFR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62325041	0.89[AFR][1000 genomes]
rs6811200	1.00[YRI][hapmap]
rs6824417	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs6852755	1.00[YRI][hapmap]
rs7680607	0.90[AFR][1000 genomes]
rs9312637	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9990883	0.81[AFR][1000 genomes]
rs9992110	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9998430	0.85[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	nsv1004889	chr4:53436500-54106281	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv537094	chr4:53436500-54106281	Bivalent/Poised TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:53993800-54027800	Weak transcription	Fetal Stomach	stomach
2	chr4:53999000-54027800	Weak transcription	NHDF-Ad	bronchial
3	chr4:54004200-54052200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr4:54007200-54030600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr4:54010200-54034600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr4:54011400-54027800	Weak transcription	Aorta	Aorta
7	chr4:54011600-54027200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr4:54011600-54027800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr4:54011600-54029200	Weak transcription	Fetal Muscle Trunk	muscle
10	chr4:54011600-54030600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr4:54011600-54052200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr4:54011800-54031600	Weak transcription	Pancreas	Pancrea
13	chr4:54018000-54028000	Weak transcription	Psoas Muscle	Psoas
14	chr4:54018000-54028200	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr4:54018000-54035800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr4:54018200-54027400	Weak transcription	Liver	Liver
17	chr4:54019400-54042600	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr4:54022000-54027800	Weak transcription	Fetal Kidney	kidney
19	chr4:54023800-54027200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr4:54025200-54027600	Weak transcription	Fetal Lung	lung
21	chr4:54026400-54030600	Weak transcription	Primary T cells from cord blood	blood
22	chr4:54026600-54038800	Weak transcription	Primary B cells from cord blood	blood

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