Variant report

Variant	rs12555674
Chromosome Location	chr9:17707200-17707201
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs12550865	1.00[CEU][hapmap]
rs12552706	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12554712	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16923327	0.93[ASW][hapmap];0.97[LWK][hapmap];0.86[MKK][hapmap];0.86[YRI][hapmap];0.96[AFR][1000 genomes]
rs16935876	1.00[CEU][hapmap];0.88[GIH][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap]
rs16935877	1.00[CEU][hapmap];0.88[GIH][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16935914	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2383040	0.93[YRI][hapmap]
rs3808701	0.89[YRI][hapmap];0.86[AFR][1000 genomes]
rs4507864	1.00[CEU][hapmap];1.00[CHD][hapmap];0.94[MEX][hapmap];0.86[TSI][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56668669	0.97[AFR][1000 genomes]
rs7023310	0.93[ASW][hapmap];0.95[LWK][hapmap];0.81[MKK][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes]
rs7047514	0.94[MEX][hapmap]
rs73422675	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73645113	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73645139	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7865066	1.00[CEU][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];0.82[MEX][hapmap];0.93[TSI][hapmap]
rs7869947	0.96[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv613693	chr9:17147191-17710407	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv471287	chr9:17165698-17708814	Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv466269	chr9:17165698-17710407	Weak transcription ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1016971	chr9:17648242-17720176	Enhancers Weak transcription Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
5	nsv1021022	chr9:17649360-17723730	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	inside rSNPs	diseases
6	nsv892675	chr9:17694823-17790526	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv466279	chr9:17699981-17726581	Weak transcription Enhancers Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
8	nsv613705	chr9:17699981-17726581	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:17706800-17707400	Enhancers	Fetal Intestine Large	intestine
2	chr9:17707200-17707600	Enhancers	Pancreatic Islets	Pancreatic Islet

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

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