Variant report

Variant	rs1461605
Chromosome Location	chr4:91962013-91962014
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10030101	0.83[EUR][1000 genomes]
rs10516885	0.89[CEU][hapmap];0.86[CHB][hapmap];0.84[TSI][hapmap]
rs1110741	0.91[EUR][1000 genomes]
rs1110742	0.91[EUR][1000 genomes]
rs12504169	0.91[EUR][1000 genomes]
rs12508066	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12509672	0.92[CEU][hapmap]
rs12640033	0.92[CEU][hapmap];0.90[GIH][hapmap];0.86[MEX][hapmap];0.91[TSI][hapmap]
rs12650206	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13106577	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap]
rs13133514	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap]
rs1381293	0.92[CEU][hapmap]
rs1461590	0.85[EUR][1000 genomes]
rs1461594	0.88[CEU][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes]
rs1461598	0.90[GIH][hapmap];0.86[MEX][hapmap];0.87[TSI][hapmap]
rs1531404	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17199344	0.80[CEU][hapmap]
rs28580103	0.91[EUR][1000 genomes]
rs28582898	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2870281	0.86[EUR][1000 genomes]
rs2870282	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34059354	0.90[EUR][1000 genomes]
rs34239566	0.86[EUR][1000 genomes]
rs35955130	0.92[CEU][hapmap];0.90[GIH][hapmap];0.82[MEX][hapmap];0.91[TSI][hapmap];0.91[EUR][1000 genomes]
rs4693255	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs5009447	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62309843	0.83[EUR][1000 genomes]
rs6830306	0.92[CEU][hapmap];0.90[GIH][hapmap];0.91[MEX][hapmap];0.91[TSI][hapmap];0.91[EUR][1000 genomes]
rs6830699	0.90[EUR][1000 genomes]
rs72667524	0.91[EUR][1000 genomes]
rs898761	0.91[EUR][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	nsv879555	chr4:91743538-91967602	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv491945	chr4:91753638-92240582	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv879559	chr4:91918870-92152678	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv869023	chr4:91940838-92935383	Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	esv2757943	chr4:91946664-92146114	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	esv2759267	chr4:91946664-92146114	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Strong transcription	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
rs1461605	ATOH1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:91961600-91962400	Enhancers	HUES48 Cell Line	embryonic stem cell

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