Variant report

Variant	rs10082003
Chromosome Location	chr1:225847476-225847477
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:225844790..225847671-chr1:226111498..226113451,2	MCF-7	breast:
2	chr1:225840113..225842688-chr1:225846092..225848913,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000143811	Chromatin interaction
ENSG00000154380	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10915853	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12080606	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2035916	0.90[AMR][1000 genomes]
rs28818505	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3904084	0.90[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs475794	0.85[AMR][1000 genomes]
rs525062	0.83[AMR][1000 genomes]
rs526221	0.80[AMR][1000 genomes]
rs544404	0.83[AMR][1000 genomes]
rs544430	0.83[AMR][1000 genomes]
rs566085	0.83[AMR][1000 genomes]
rs59363938	0.85[AMR][1000 genomes]
rs9651009	0.88[AMR][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	nsv832725	chr1:225726998-225910121	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv832736	chr1:225815717-225968619	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 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	chr1:225842000-225865000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr1:225843000-225852400	Weak transcription	Psoas Muscle	Psoas
3	chr1:225843600-225848000	Weak transcription	Brain Substantia Nigra	brain
4	chr1:225843800-225848000	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr1:225844000-225854000	Weak transcription	Fetal Lung	lung
6	chr1:225845400-225848000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr1:225845600-225847800	Weak transcription	Adipose Nuclei	Adipose
8	chr1:225845600-225848200	Weak transcription	Fetal Stomach	stomach
9	chr1:225845600-225850200	Weak transcription	Lung	lung
10	chr1:225845600-225852200	Weak transcription	Skeletal Muscle Male	skeletal muscle
11	chr1:225845600-225858400	Weak transcription	Right Atrium	heart
12	chr1:225845800-225848200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr1:225845800-225848400	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr1:225845800-225849400	Weak transcription	Fetal Heart	heart
15	chr1:225846000-225848200	Weak transcription	Colon Smooth Muscle	Colon
16	chr1:225846000-225848200	Weak transcription	Stomach Smooth Muscle	stomach
17	chr1:225846000-225858000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr1:225846200-225847800	Weak transcription	HUVEC	blood vessel
19	chr1:225846200-225848200	Weak transcription	Rectal Smooth Muscle	rectum
20	chr1:225846200-225848200	Weak transcription	A549	lung
21	chr1:225846200-225849400	Weak transcription	NH-A	brain
22	chr1:225846400-225850200	Weak transcription	Aorta	Aorta
23	chr1:225846600-225847800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr1:225846800-225848200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr1:225847200-225847800	Enhancers	Primary B cells from cord blood	blood
26	chr1:225847200-225849400	Enhancers	Primary B cells from peripheral blood	blood

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