Variant report

Variant	rs12202836
Chromosome Location	chr6:69562946-69562947
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10455223	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10945146	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12154054	1.00[CEU][hapmap];0.91[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12194110	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12198700	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12199028	1.00[CEU][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12200743	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12208199	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12209015	1.00[CEU][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17259872	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17398479	0.87[CEU][hapmap]
rs17476556	0.88[CEU][hapmap]
rs1932608	0.82[CEU][hapmap];0.89[MEX][hapmap];0.86[TSI][hapmap];0.86[EUR][1000 genomes]
rs1932613	0.88[CEU][hapmap];0.87[GIH][hapmap];0.81[TSI][hapmap]
rs72902918	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72902944	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72903000	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886132	chr6:69487204-69610281	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv886133	chr6:69549897-69610281	Weak transcription Enhancers ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv1020792	chr6:69555181-69578740	Weak transcription Enhancers Strong transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv1025548	chr6:69555181-69589956	Enhancers Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12202836	C6orf57	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:69557400-69566800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr6:69562200-69564200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr6:69562400-69563000	Enhancers	Brain Anterior Caudate	brain
4	chr6:69562400-69564800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr6:69562800-69563000	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr6:69562800-69563000	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr6:69562800-69566200	Weak transcription	Cortex derived primary cultured neurospheres	brain

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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