Variant report

Variant	rs6482540
Chromosome Location	chr10:26530357-26530358
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs11014982	0.86[CEU][hapmap]
rs11015012	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11818977	0.83[GIH][hapmap]
rs11819181	0.83[GIH][hapmap]
rs12098763	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12098764	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12243085	0.86[CEU][hapmap];0.81[CHD][hapmap];0.83[GIH][hapmap];0.94[TSI][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12263667	0.86[CEU][hapmap];0.81[CHD][hapmap];0.83[GIH][hapmap];0.94[TSI][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12267286	0.86[CEU][hapmap];0.93[TSI][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1556234	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs17738949	0.83[GIH][hapmap]
rs1805398	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2298124	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2839668	0.80[EUR][1000 genomes]
rs2839674	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2839676	0.86[CEU][hapmap];0.83[GIH][hapmap];0.94[TSI][hapmap];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2839677	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3781105	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3781110	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3781116	0.86[CEU][hapmap];0.81[CHD][hapmap];0.83[GIH][hapmap];0.94[TSI][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3781118	0.86[CEU][hapmap];0.80[EUR][1000 genomes]
rs3904297	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3904298	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4121076	0.80[EUR][1000 genomes]
rs41304609	0.80[EUR][1000 genomes]
rs41454449	0.83[GIH][hapmap]
rs59122563	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs59914979	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6482538	0.83[CEU][hapmap];0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6482539	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6482547	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs7067786	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7072137	0.82[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.80[EUR][1000 genomes]
rs7100268	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs73594327	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7897510	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7908975	0.86[CEU][hapmap];0.81[CHD][hapmap];0.83[GIH][hapmap];0.94[TSI][hapmap];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7911425	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs8190597	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs8190607	0.80[EUR][1000 genomes]
rs8190635	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8190639	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8190641	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8190646	0.86[CEU][hapmap];0.81[CHD][hapmap];0.83[GIH][hapmap];0.94[TSI][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8190649	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8190650	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8190718	0.82[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.80[EUR][1000 genomes]
rs8190750	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8190770	0.80[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap]
rs8190775	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8190787	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8190789	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8190800	1.00[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv894975	chr10:26343356-27014467	Strong transcription Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:26519200-26557800	Weak transcription	Brain Anterior Caudate	brain
2	chr10:26528200-26531600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr10:26528200-26532200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr10:26528600-26531200	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr10:26528800-26531400	Weak transcription	Brain Germinal Matrix	brain

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