Variant report

Variant	rs263125
Chromosome Location	chr6:142939836-142939837
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs13202642	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs166399	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1770771	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs185523	0.87[EUR][1000 genomes]
rs187809	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2077836	0.88[ASN][1000 genomes]
rs263102	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs263124	0.99[ASN][1000 genomes]
rs263126	0.99[ASN][1000 genomes]
rs263127	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs263130	0.91[ASN][1000 genomes]
rs263131	0.96[ASN][1000 genomes]
rs263132	0.85[EUR][1000 genomes]
rs263133	0.82[EUR][1000 genomes]
rs263134	0.83[EUR][1000 genomes]
rs263135	0.83[EUR][1000 genomes]
rs263137	0.86[EUR][1000 genomes]
rs263138	0.86[EUR][1000 genomes]
rs263139	0.87[EUR][1000 genomes]
rs263140	0.87[EUR][1000 genomes]
rs263142	0.87[EUR][1000 genomes]
rs263143	0.87[EUR][1000 genomes]
rs263144	0.87[EUR][1000 genomes]
rs263145	0.87[EUR][1000 genomes]
rs263146	0.86[EUR][1000 genomes]
rs263147	0.86[EUR][1000 genomes]
rs263148	0.87[EUR][1000 genomes]
rs263149	0.87[EUR][1000 genomes]
rs263151	0.87[EUR][1000 genomes]
rs263161	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6902754	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs6908599	0.89[EUR][1000 genomes]
rs6924380	1.00[JPT][hapmap]
rs6928084	0.89[EUR][1000 genomes]
rs9373355	0.96[ASN][1000 genomes]
rs9496433	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1023426	chr6:142813845-142940262	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv830827	chr6:142840734-143015005	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs263125	GRM1	cis	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142933600-142944000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr6:142938800-142945800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr6:142939200-142943800	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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