Variant report

Variant	rs10516885
Chromosome Location	chr4:91948999-91949000
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10030101	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10461125	0.82[CEU][hapmap]
rs1110741	0.90[EUR][1000 genomes]
rs1110742	0.90[EUR][1000 genomes]
rs12504169	0.90[EUR][1000 genomes]
rs12509672	0.96[CEU][hapmap];0.82[JPT][hapmap]
rs12640033	0.96[CEU][hapmap];0.83[JPT][hapmap];0.93[TSI][hapmap]
rs12650206	0.81[CEU][hapmap];0.81[CHB][hapmap]
rs13106577	0.81[CEU][hapmap];0.81[CHB][hapmap];0.80[TSI][hapmap]
rs13129633	0.95[ASN][1000 genomes]
rs13133514	0.81[CEU][hapmap];0.81[CHB][hapmap];0.80[TSI][hapmap]
rs1381293	0.84[CEU][hapmap]
rs1461598	0.83[JPT][hapmap];0.89[TSI][hapmap]
rs1461605	0.89[CEU][hapmap];0.86[CHB][hapmap];0.84[TSI][hapmap];0.83[EUR][1000 genomes]
rs1531404	0.86[EUR][1000 genomes]
rs17199344	0.84[CEU][hapmap]
rs17200097	0.83[JPT][hapmap]
rs17265766	0.82[CEU][hapmap]
rs17266413	0.82[CEU][hapmap]
rs2054331	0.83[GIH][hapmap];0.86[JPT][hapmap]
rs2054332	0.82[CEU][hapmap]
rs2126217	0.81[CEU][hapmap]
rs28580103	0.90[EUR][1000 genomes]
rs28582898	0.83[EUR][1000 genomes]
rs2870281	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2870282	0.86[EUR][1000 genomes]
rs34059354	0.90[EUR][1000 genomes]
rs34239566	0.85[EUR][1000 genomes]
rs35955130	0.96[CEU][hapmap];0.83[JPT][hapmap];0.93[TSI][hapmap];0.90[EUR][1000 genomes]
rs4693255	0.88[CEU][hapmap];0.83[CHB][hapmap];0.86[EUR][1000 genomes]
rs5009447	0.84[CEU][hapmap];0.83[CHB][hapmap];0.83[EUR][1000 genomes]
rs62309843	0.82[EUR][1000 genomes]
rs6819554	1.00[GIH][hapmap];0.86[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap]
rs6830306	0.96[CEU][hapmap];0.83[JPT][hapmap];0.93[TSI][hapmap];0.90[EUR][1000 genomes]
rs6830699	0.89[EUR][1000 genomes]
rs72667524	0.90[EUR][1000 genomes]
rs898761	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 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	nsv879557	chr4:91903868-91954105	ZNF genes & repeats Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv4423	chr4:91908999-91953040	Enhancers Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv879558	chr4:91911743-91948999	Enhancers Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
6	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
7	nsv879560	chr4:91919028-91948999	ZNF genes & repeats Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
8	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
9	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
10	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
rs10516885	ATOH1	cis	cerebellum	SCAN

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

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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