Variant report

Variant	rs12340419
Chromosome Location	chr9:84609057-84609058
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:84608627..84610536-chr9:84691532..84693199,2	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10118455	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs10217389	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11139464	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11139465	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12001732	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12335647	0.88[EUR][1000 genomes]
rs12336197	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12338395	0.95[AMR][1000 genomes]
rs12338553	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12339026	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs12341327	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12341627	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12342604	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12344716	0.86[EUR][1000 genomes]
rs12345231	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs12345266	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs12351812	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs1334759	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1334760	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1334761	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1413797	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes]
rs1413798	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1855607	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs56281129	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs56306550	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57223205	0.88[EUR][1000 genomes]
rs57386263	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs57921200	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58931877	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs60427225	0.91[AMR][1000 genomes]
rs6559647	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6559649	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6559650	0.80[YRI][hapmap]
rs7023372	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7865884	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9886839	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9886873	0.88[EUR][1000 genomes]
rs9987870	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831639	chr9:84501548-84651151	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv8537	chr9:84602529-84611348	Enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

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

No data

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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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