Variant report

Variant	rs263142
Chromosome Location	chr6:142952944-142952945
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs13202642	0.81[EUR][1000 genomes]
rs166399	0.85[EUR][1000 genomes]
rs1770771	0.81[EUR][1000 genomes]
rs185523	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs187809	0.84[EUR][1000 genomes]
rs263102	0.84[EUR][1000 genomes]
rs263125	0.87[EUR][1000 genomes]
rs263127	0.87[EUR][1000 genomes]
rs263132	0.95[EUR][1000 genomes]
rs263133	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs263134	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs263135	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs263137	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs263138	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs263139	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs263140	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs263143	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs263144	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs263145	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs263146	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs263147	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs263148	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs263149	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs263151	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs263152	0.90[EUR][1000 genomes]
rs263161	0.81[EUR][1000 genomes]
rs6902754	0.81[EUR][1000 genomes]
rs6908599	0.81[EUR][1000 genomes]
rs6928084	0.81[EUR][1000 genomes]
rs9496433	0.81[EUR][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	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	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
rs263142	GRM1	cis	parietal	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142946800-142956000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:142949000-142953000	Weak transcription	Primary T helper cells fromperipheralblood	blood
3	chr6:142952400-142953600	Enhancers	Primary T cells from cord blood	blood
4	chr6:142952600-142953200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
5	chr6:142952600-142953400	Enhancers	Primary T helper cells PMA-I stimulated	--
6	chr6:142952600-142953400	Enhancers	Dnd41	blood
7	chr6:142952600-142953600	Enhancers	HepG2	liver
8	chr6:142952800-142953400	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr6:142952800-142953400	Enhancers	Primary T helper naive cells fromperipheralblood	blood

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