Variant report

Variant	rs10938847
Chromosome Location	chr4:21599302-21599303
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10021380	0.82[CEU][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1021862	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs10938851	1.00[CHB][hapmap];0.94[YRI][hapmap]
rs11728537	0.82[CEU][hapmap];1.00[CHB][hapmap];0.92[LWK][hapmap];0.94[YRI][hapmap]
rs11935160	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs12505463	0.86[CHB][hapmap]
rs13146325	0.86[CHB][hapmap]
rs13146424	0.86[CHB][hapmap]
rs1394137	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1394139	0.84[LWK][hapmap];0.94[YRI][hapmap]
rs1503993	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1503994	1.00[CHB][hapmap];0.87[YRI][hapmap]
rs17485934	1.00[CHB][hapmap]
rs17487317	0.86[CHB][hapmap]
rs17551181	0.86[CHB][hapmap]
rs17557643	1.00[CHB][hapmap]
rs1814167	0.82[CEU][hapmap];1.00[CHB][hapmap];0.92[LWK][hapmap];0.94[YRI][hapmap]
rs1827595	0.86[YRI][hapmap]
rs1847424	1.00[CHB][hapmap]
rs1910525	1.00[CHB][hapmap]
rs2323068	1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2874950	0.87[ASN][1000 genomes]
rs358836	0.86[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs3913663	1.00[CHB][hapmap];0.84[LWK][hapmap];0.94[YRI][hapmap]
rs4572864	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4572865	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6448061	0.82[CEU][hapmap];1.00[CHB][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6448063	0.89[JPT][hapmap]
rs6812187	0.82[CEU][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6828989	0.87[CEU][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7661478	0.87[CEU][hapmap];1.00[CHB][hapmap];0.94[YRI][hapmap]
rs7664902	1.00[CHB][hapmap];0.94[YRI][hapmap]
rs7665351	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7675686	1.00[CHB][hapmap]
rs7684272	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013365	chr4:20834054-21609078	Bivalent/Poised TSS Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
2	nsv829879	chr4:21418568-21611002	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
3	nsv998481	chr4:21421945-21608805	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
4	nsv829880	chr4:21492426-21693816	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1008716	chr4:21580423-21633636	Weak transcription Active TSS Enhancers Flanking Active TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1003426	chr4:21580423-21640350	Active TSS Weak transcription Enhancers Flanking Active TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv461289	chr4:21588298-21639516	Active TSS Weak transcription Enhancers Flanking Active TSS	lncRNA	n/a	inside rSNPs	diseases
8	nsv593809	chr4:21588298-21639516	Enhancers Flanking Active TSS Weak transcription Active TSS	lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:21597600-21599400	Enhancers	Brain Substantia Nigra	brain
2	chr4:21598800-21599400	Enhancers	Brain Cingulate Gyrus	brain
3	chr4:21598800-21599400	Enhancers	Brain Hippocampus Middle	brain
4	chr4:21598800-21599800	Weak transcription	HUES48 Cell Line	embryonic stem cell

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