Variant report

Variant	rs7121582
Chromosome Location	chr11:59128518-59128519
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:59128426-59128543	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
OR5AN1	TF binding region

Extended variants
information (count: 55 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10792231	0.82[JPT][hapmap]
rs11604216	0.91[EUR][1000 genomes]
rs11604452	0.91[TSI][hapmap]
rs12418613	0.81[EUR][1000 genomes]
rs12420443	0.81[EUR][1000 genomes]
rs12420477	0.81[EUR][1000 genomes]
rs12801196	0.81[EUR][1000 genomes]
rs12806497	0.81[EUR][1000 genomes]
rs12808401	0.81[EUR][1000 genomes]
rs12808731	0.81[EUR][1000 genomes]
rs1349777	0.84[TSI][hapmap]
rs1453541	0.88[TSI][hapmap]
rs1453542	0.91[TSI][hapmap]
rs1453544	0.81[TSI][hapmap]
rs1453547	0.84[TSI][hapmap]
rs1453550	0.84[TSI][hapmap]
rs1453551	0.84[TSI][hapmap]
rs1522759	0.84[TSI][hapmap]
rs1589600	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1589601	0.81[EUR][1000 genomes]
rs1608210	0.95[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs1608211	0.97[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs1608212	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17498652	0.81[EUR][1000 genomes]
rs17584022	0.81[TSI][hapmap]
rs17591107	0.81[TSI][hapmap]
rs1851513	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1879929	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1955070	0.81[EUR][1000 genomes]
rs1972149	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2040326	0.96[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.97[TSI][hapmap];0.93[YRI][hapmap]
rs2091008	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2123675	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2123676	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2198451	0.80[EUR][1000 genomes]
rs34037092	0.81[EUR][1000 genomes]
rs34387009	0.80[EUR][1000 genomes]
rs35872497	0.81[EUR][1000 genomes]
rs4536240	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4938916	0.84[TSI][hapmap]
rs4939272	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61902489	0.81[EUR][1000 genomes]
rs61902559	0.91[EUR][1000 genomes]
rs6591536	0.83[TSI][hapmap]
rs7103331	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7105556	0.96[CEU][hapmap];0.85[CHD][hapmap];0.97[GIH][hapmap];0.94[JPT][hapmap];0.91[MEX][hapmap];0.97[TSI][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7934882	0.81[EUR][1000 genomes]
rs7944892	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7949055	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1050013	chr11:58394598-59221090	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv948365	chr11:58515163-59156405	Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Genic enhancers Enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
3	nsv1046084	chr11:59034871-59314519	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
4	nsv541052	chr11:59119390-59185103	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv1039690	chr11:59124719-59178832	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv1047952	chr11:59124719-59221606	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs7121582	TUT1	cis	parietal	SCAN
rs7121582	OR5AR1	cis	cerebellum	SCAN
rs7121582	OR5D13	cis	cerebellum	SCAN
rs7121582	FEN1	cis	parietal	SCAN
rs7121582	DDB1	cis	parietal	SCAN
rs7121582	SNORD27	cis	parietal	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
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