Variant report

Variant	rs16979458
Chromosome Location	chr21:28305871-28305872
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs151056	0.91[ASN][1000 genomes]
rs151057	0.93[CHB][hapmap];0.82[ASN][1000 genomes]
rs151059	0.93[CHB][hapmap];0.92[JPT][hapmap];0.89[ASN][1000 genomes]
rs162487	0.83[ASN][1000 genomes]
rs162494	0.89[ASN][1000 genomes]
rs162496	0.86[CHB][hapmap];0.90[CHD][hapmap];0.92[JPT][hapmap];0.90[ASN][1000 genomes]
rs162497	0.93[CHB][hapmap];0.97[CHD][hapmap];0.92[JPT][hapmap];0.93[ASN][1000 genomes]
rs162499	0.93[CHB][hapmap];1.00[CHD][hapmap];0.92[JPT][hapmap];0.95[ASN][1000 genomes]
rs16979422	1.00[AFR][1000 genomes]
rs170655	0.83[ASN][1000 genomes]
rs229045	0.91[ASN][1000 genomes]
rs229046	0.91[ASN][1000 genomes]
rs229049	0.89[ASN][1000 genomes]
rs229050	0.89[ASN][1000 genomes]
rs229051	0.83[ASN][1000 genomes]
rs229079	0.81[CHD][hapmap]
rs229090	0.92[ASN][1000 genomes]
rs2298657	0.81[CHD][hapmap];0.84[JPT][hapmap]
rs233897	0.93[CHB][hapmap];0.84[JPT][hapmap];0.85[ASN][1000 genomes]
rs233898	0.93[CHB][hapmap];0.86[ASN][1000 genomes]
rs2830584	1.00[CHB][hapmap];0.92[ASN][1000 genomes]
rs2830588	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2830589	0.93[CHB][hapmap];0.92[JPT][hapmap];0.89[ASN][1000 genomes]
rs438349	0.93[CHB][hapmap];0.92[JPT][hapmap];0.83[ASN][1000 genomes]
rs72635037	1.00[EUR][1000 genomes]
rs72635038	1.00[EUR][1000 genomes]
rs7281968	0.92[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	nsv1066573	chr21:28096356-28374354	Enhancers Strong transcription Genic enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1057400	chr21:28104936-28359948	Strong transcription Genic enhancers Bivalent/Poised TSS Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv834068	chr21:28179670-28360808	Bivalent Enhancer Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	nsv1067475	chr21:28238746-29046707	Enhancers Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:28291000-28311800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr21:28291600-28312200	Strong transcription	HSMM	muscle
3	chr21:28293000-28334800	Weak transcription	Hela-S3	cervix
4	chr21:28294600-28318000	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr21:28294600-28318200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr21:28294800-28307200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr21:28295200-28306600	Strong transcription	Osteobl	bone
8	chr21:28295200-28310000	Strong transcription	Adipose Nuclei	Adipose
9	chr21:28295400-28318200	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr21:28296200-28307800	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr21:28296600-28315400	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr21:28296800-28307400	Weak transcription	Duodenum Mucosa	Duodenum
13	chr21:28296800-28308200	Weak transcription	Fetal Lung	lung
14	chr21:28296800-28318200	Weak transcription	Left Ventricle	heart
15	chr21:28297000-28311800	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr21:28297800-28308200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr21:28298600-28311600	Weak transcription	Brain Germinal Matrix	brain
18	chr21:28298600-28313000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr21:28298800-28311000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
20	chr21:28298800-28318200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr21:28300200-28311200	Weak transcription	NHLF	lung
22	chr21:28301200-28309800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr21:28301400-28307600	Strong transcription	Fetal Muscle Trunk	muscle
24	chr21:28301400-28308200	Strong transcription	NHDF-Ad	bronchial
25	chr21:28301800-28308400	Strong transcription	Fetal Kidney	kidney
26	chr21:28301800-28313000	Strong transcription	HSMMtube	muscle
27	chr21:28303600-28308400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr21:28304000-28306600	Strong transcription	Fetal Intestine Large	intestine
29	chr21:28304000-28308400	Strong transcription	Fetal Muscle Leg	muscle
30	chr21:28304200-28306000	Strong transcription	Monocytes-CD14+_RO01746	blood
31	chr21:28304200-28307400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr21:28304200-28307400	Strong transcription	Ovary	ovary
33	chr21:28304600-28308000	Weak transcription	Fetal Brain Male	brain
34	chr21:28305000-28307400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr21:28305400-28306800	Weak transcription	Fetal Intestine Small	intestine
36	chr21:28305400-28307800	Weak transcription	Primary monocytes fromperipheralblood	blood
37	chr21:28305800-28306200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr21:28305800-28306200	Enhancers	Colon Smooth Muscle	Colon
39	chr21:28305800-28306200	Genic enhancers	Fetal Stomach	stomach
40	chr21:28305800-28306200	Genic enhancers	Stomach Smooth Muscle	stomach
41	chr21:28305800-28307000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr21:28305800-28319200	Weak transcription	Placenta	Placenta

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