Variant report

Variant	rs6049622
Chromosome Location	chr20:24337664-24337665
allele	A/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:24147267..24149849-chr20:24336608..24338562,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1016589	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1474733	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1474734	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1474735	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1540912	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1540913	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2092466	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2092467	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2143508	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2206649	0.84[AMR][1000 genomes]
rs2386706	0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6036744	0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6036746	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6036747	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6036748	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6036749	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6036751	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6036753	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6049614	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6049617	0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6049620	0.94[ASN][1000 genomes]
rs6049621	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6049623	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6049624	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6049631	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6083506	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6114672	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs878289	0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs926608	0.84[AMR][1000 genomes];0.94[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	nsv9793	chr20:23939613-24734850	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv833945	chr20:24163437-24349462	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1058146	chr20:24210196-24531087	Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv833946	chr20:24320375-24490702	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24332000-24341800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr20:24333400-24339400	Weak transcription	Brain Angular Gyrus	brain
3	chr20:24334000-24338400	Enhancers	Brain Hippocampus Middle	brain
4	chr20:24334600-24339800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr20:24334800-24338000	Enhancers	Brain Germinal Matrix	brain
6	chr20:24336400-24338200	Enhancers	Fetal Brain Male	brain
7	chr20:24336600-24337800	Weak transcription	Brain Anterior Caudate	brain
8	chr20:24337000-24337800	Enhancers	Fetal Stomach	stomach
9	chr20:24337000-24338200	Enhancers	Brain Cingulate Gyrus	brain
10	chr20:24337000-24338200	Enhancers	Brain Inferior Temporal Lobe	brain
11	chr20:24337400-24338200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr20:24337400-24338600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
13	chr20:24337600-24338200	Enhancers	Gastric	stomach
14	chr20:24337600-24338400	Enhancers	Brain Substantia Nigra	brain

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