Variant report

Variant	rs71322858
Chromosome Location	chr3:89233979-89233980
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs1040015	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11914760	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11916891	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11928901	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12487141	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12490373	0.82[EUR][1000 genomes]
rs12490659	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12491480	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12493524	0.83[EUR][1000 genomes]
rs12493527	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12494615	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12495783	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12496609	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12496791	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13058761	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13058886	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13060198	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13071923	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13074291	0.83[EUR][1000 genomes]
rs13084503	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13089469	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13095092	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13097212	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13097548	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13098003	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34493897	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34638812	0.82[EUR][1000 genomes]
rs34855223	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34893903	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34992749	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35053334	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35156943	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35445148	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35971332	0.89[ASN][1000 genomes]
rs56408441	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56938121	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59668913	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6778523	0.82[EUR][1000 genomes]
rs71322851	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71322854	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71322855	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71322856	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71322857	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7430987	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7617920	0.81[AFR][1000 genomes]
rs7638207	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7642606	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];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	nsv834760	chr3:89085529-89299398	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv997874	chr3:89188275-89279573	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv1008916	chr3:89206065-89241915	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv979775	chr3:89232947-89234326	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:89227200-89235800	Weak transcription	Fetal Brain Female	brain
2	chr3:89229400-89234800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr3:89230000-89234000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:89231400-89234600	Weak transcription	Fetal Brain Male	brain
5	chr3:89232400-89234000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr3:89232600-89235000	Enhancers	iPS-20b Cell Line	embryonic stem cell
7	chr3:89233000-89235000	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr3:89233200-89235000	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr3:89233200-89235000	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr3:89233200-89235200	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr3:89233400-89234200	Enhancers	Brain Substantia Nigra	brain
12	chr3:89233400-89234200	Enhancers	Fetal Lung	lung
13	chr3:89233400-89234400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr3:89233400-89235000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr3:89233400-89235200	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr3:89233400-89235200	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
17	chr3:89233600-89234000	Enhancers	Brain Germinal Matrix	brain
18	chr3:89233600-89234800	Enhancers	ES-I3 Cell Line	embryonic stem cell
19	chr3:89233800-89234000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr3:89233800-89234200	Enhancers	Brain Hippocampus Middle	brain
21	chr3:89233800-89234200	Enhancers	Stomach Smooth Muscle	stomach
22	chr3:89233800-89234800	Enhancers	H1 Cell Line	embryonic stem cell
23	chr3:89233800-89236200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

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