Variant report

Variant	rs6515299
Chromosome Location	chr20:23012177-23012178
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10485639	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13036275	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1331071	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1883956	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2207106	0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2207107	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2268199	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34217171	0.82[EUR][1000 genomes]
rs34854430	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34980833	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35745073	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs36016048	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3746726	0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3746728	0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6076008	0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6076009	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs6076010	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6076012	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6076013	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6082974	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6082975	0.81[CEU][hapmap];0.83[CHB][hapmap];0.88[JPT][hapmap];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6082977	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6082981	0.82[CEU][hapmap]
rs6082986	0.83[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6106596	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6113905	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6113908	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7262749	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8120756	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][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	nsv912816	chr20:22757960-23062927	Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv524981	chr20:23011468-23021597	Bivalent Enhancer Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:23001000-23015800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr20:23010200-23012600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr20:23010200-23012800	Weak transcription	Primary hematopoietic stem cells	blood
4	chr20:23010600-23012800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr20:23011200-23012600	Enhancers	Fetal Heart	heart
6	chr20:23011200-23013800	Enhancers	Left Ventricle	heart
7	chr20:23011400-23014600	Enhancers	Dnd41	blood
8	chr20:23011600-23012800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr20:23011600-23013000	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr20:23011800-23012200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr20:23011800-23012200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr20:23011800-23013400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr20:23012000-23014800	Enhancers	Right Ventricle	heart

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