Variant report

Variant	rs10006372
Chromosome Location	chr4:94359448-94359449
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10012463	0.88[ASN][1000 genomes]
rs10018947	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10019422	0.82[EUR][1000 genomes]
rs10022753	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10026391	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10029321	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1032125	0.86[ASN][1000 genomes]
rs1032126	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10516919	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11097363	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11097364	0.81[ASN][1000 genomes]
rs1154861	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11733231	0.87[ASN][1000 genomes]
rs1385405	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1385410	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1433662	0.82[ASN][1000 genomes]
rs1433663	0.82[ASN][1000 genomes]
rs1469738	0.84[ASN][1000 genomes]
rs1485023	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1485033	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1872383	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1905710	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1905723	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1905725	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1905729	0.86[ASN][1000 genomes]
rs1905730	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1905732	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2046418	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2200376	0.89[ASN][1000 genomes]
rs2220179	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2870696	0.82[ASN][1000 genomes]
rs2870699	0.81[ASN][1000 genomes]
rs2870702	0.87[ASN][1000 genomes]
rs2870703	0.88[ASN][1000 genomes]
rs2870704	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2870706	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2904482	0.81[ASN][1000 genomes]
rs2904483	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3913651	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4692983	0.82[EUR][1000 genomes]
rs4692984	0.84[EUR][1000 genomes]
rs4693317	0.88[ASN][1000 genomes]
rs4693318	0.94[ASN][1000 genomes]
rs4693319	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6831478	0.86[ASN][1000 genomes]
rs6836194	0.86[ASN][1000 genomes]
rs7661436	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7668090	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7669747	0.84[ASN][1000 genomes]
rs7670441	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9790436	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9994126	0.86[ASN][1000 genomes]
rs9996912	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9997032	0.83[EUR][1000 genomes]
rs9998683	0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013255	chr4:94027129-94462345	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv2830401	chr4:94141655-94450106	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	esv3584808	chr4:94156602-94559327	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1008055	chr4:94169131-95030074	Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv533846	chr4:94264488-94462921	Enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv931979	chr4:94289958-95121723	Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:94357200-94359600	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr4:94358200-94359600	Enhancers	Brain Germinal Matrix	brain
3	chr4:94358800-94359600	Enhancers	Brain Substantia Nigra	brain
4	chr4:94358800-94359600	Enhancers	Fetal Brain Male	brain
5	chr4:94359000-94359600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr4:94359000-94359600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr4:94359200-94359600	Enhancers	Brain Cingulate Gyrus	brain
8	chr4:94359200-94359600	Enhancers	Brain Hippocampus Middle	brain
9	chr4:94359400-94359800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

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