Variant report

Variant	rs158620
Chromosome Location	chr1:76571063-76571064
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs12408886	1.00[JPT][hapmap]
rs12408918	1.00[JPT][hapmap]
rs17098119	1.00[JPT][hapmap]
rs190861	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2631779	1.00[JPT][hapmap]
rs289674	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs289676	1.00[CEU][hapmap];0.86[CHB][hapmap];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs289677	0.86[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs289678	0.94[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs289687	1.00[JPT][hapmap]
rs289692	1.00[CEU][hapmap];0.85[CHB][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs289693	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs291059	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35802431	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs384233	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs399529	0.82[EUR][1000 genomes]
rs403449	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs409245	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs447383	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs491409	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs551954	0.95[EUR][1000 genomes]
rs552890	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs588073	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs61558985	0.91[EUR][1000 genomes]
rs6593524	0.81[AMR][1000 genomes]
rs6673424	1.00[JPT][hapmap]

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	nsv998499	chr1:76361784-76598712	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv871862	chr1:76525783-76598209	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:76542800-76572000	Weak transcription	Primary B cells from cord blood	blood
2	chr1:76548400-76576200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr1:76557400-76605800	Weak transcription	Fetal Intestine Small	intestine
4	chr1:76557600-76588800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr1:76560200-76573400	Weak transcription	Brain Angular Gyrus	brain
6	chr1:76561800-76572000	Weak transcription	Brain Anterior Caudate	brain
7	chr1:76562200-76571400	Weak transcription	Fetal Kidney	kidney
8	chr1:76568600-76572400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr1:76568800-76571200	Enhancers	Fetal Lung	lung
10	chr1:76569400-76572800	Enhancers	Primary hematopoietic stem cells	blood
11	chr1:76569400-76573200	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr1:76569400-76575400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr1:76569600-76572000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr1:76569600-76572200	Weak transcription	Brain Substantia Nigra	brain
15	chr1:76570000-76573000	Enhancers	Primary neutrophils fromperipheralblood	blood
16	chr1:76570000-76573600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr1:76570200-76573800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr1:76570600-76572800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr1:76570800-76571200	Enhancers	Primary T cells from cord blood	blood
20	chr1:76570800-76571600	Enhancers	Primary hematopoietic stem cells short term culture	blood
21	chr1:76570800-76574200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr1:76571000-76571200	Enhancers	Left Ventricle	heart
23	chr1:76571000-76571800	Enhancers	iPS-18 Cell Line	embryonic stem cell
24	chr1:76571000-76572200	Enhancers	Breast Myoepithelial Primary Cells	Breast
25	chr1:76571000-76573000	Enhancers	Brain Hippocampus Middle	brain
26	chr1:76571000-76573800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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