Variant report

Variant	rs8042606
Chromosome Location	chr15:57100213-57100214
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:57099808..57101939-chr15:57104483..57106305,2	K562	blood:

Extended variants
information (count: 63 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs1012321	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10450961	0.87[EUR][1000 genomes]
rs10518878	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10851612	0.82[CEU][hapmap]
rs1115019	0.94[CEU][hapmap];0.86[TSI][hapmap]
rs11855646	0.80[EUR][1000 genomes]
rs11858368	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13379960	0.89[EUR][1000 genomes]
rs1430819	0.89[EUR][1000 genomes]
rs1441236	1.00[CEU][hapmap];0.87[MEX][hapmap];0.94[TSI][hapmap];0.87[EUR][1000 genomes]
rs1612205	0.90[ASN][1000 genomes]
rs1647378	0.88[ASN][1000 genomes]
rs1647392	1.00[CEU][hapmap];0.89[CHB][hapmap];0.80[CHD][hapmap];0.95[GIH][hapmap];0.84[JPT][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1657922	0.94[CEU][hapmap]
rs1657934	0.94[CEU][hapmap];0.89[CHB][hapmap];0.88[CHD][hapmap];0.84[JPT][hapmap];0.89[TSI][hapmap];0.90[ASN][1000 genomes]
rs1657935	0.90[ASN][1000 genomes]
rs1657936	0.90[ASN][1000 genomes]
rs1657937	0.90[ASN][1000 genomes]
rs1657938	0.90[ASN][1000 genomes]
rs1657939	0.90[ASN][1000 genomes]
rs1660948	0.82[ASN][1000 genomes]
rs1660951	0.90[ASN][1000 genomes]
rs1660961	0.81[EUR][1000 genomes]
rs1967352	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1967353	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2161933	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2163369	0.86[EUR][1000 genomes]
rs2278613	0.87[CEU][hapmap]
rs2414487	0.80[EUR][1000 genomes]
rs28468978	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs28568712	0.89[EUR][1000 genomes]
rs28609621	0.89[EUR][1000 genomes]
rs28736360	0.89[EUR][1000 genomes]
rs28874022	0.87[EUR][1000 genomes]
rs4313751	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4774893	0.89[ASN][1000 genomes]
rs4774895	0.89[ASN][1000 genomes]
rs56965085	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6493886	0.82[CEU][hapmap];0.86[MEX][hapmap]
rs6493892	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6493893	1.00[CEU][hapmap];0.89[CHB][hapmap];0.88[CHD][hapmap];0.95[GIH][hapmap];0.84[JPT][hapmap];0.87[MEX][hapmap];0.97[TSI][hapmap];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6493894	0.90[EUR][1000 genomes]
rs67114210	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs67278720	0.84[EUR][1000 genomes]
rs67622899	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs68083905	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7163302	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7166876	0.83[EUR][1000 genomes]
rs7172110	0.83[CHB][hapmap]
rs7175191	0.94[CEU][hapmap];0.87[TSI][hapmap]
rs7178196	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7182691	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72747165	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7359253	0.94[CEU][hapmap];0.89[CHB][hapmap];0.88[CHD][hapmap];0.84[JPT][hapmap];0.86[TSI][hapmap];0.90[ASN][1000 genomes]
rs8026149	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8040866	0.86[EUR][1000 genomes]
rs9919955	0.91[EUR][1000 genomes];0.81[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	esv3422474	chr15:56867190-57244330	Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv569576	chr15:57012816-57126917	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv833020	chr15:57055947-57216068	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	nsv457162	chr15:57083006-57225766	Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv569577	chr15:57083006-57225766	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
6	nsv1042486	chr15:57094598-57505992	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs8042606	LEO1	cis	cerebellum	SCAN
rs8042606	TEX9	cis	parietal	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57091200-57104200	Weak transcription	Aorta	Aorta
2	chr15:57099000-57104200	Weak transcription	Ovary	ovary
3	chr15:57099800-57100400	ZNF genes & repeats	Adipose Nuclei	Adipose
4	chr15:57099800-57100400	ZNF genes & repeats	Thymus	Thymus
5	chr15:57100000-57101000	ZNF genes & repeats	Liver	Liver
6	chr15:57100000-57102600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr15:57100200-57114000	Weak transcription	Brain Cingulate Gyrus	brain

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