Variant report

Variant	rs12035557
Chromosome Location	chr1:190347841-190347842
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10429905	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10800941	0.86[CEU][hapmap]
rs10920705	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10920711	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap]
rs10920715	0.93[CEU][hapmap];0.82[CHB][hapmap];0.92[EUR][1000 genomes]
rs12025018	0.86[CEU][hapmap]
rs12030570	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap]
rs12032164	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12060478	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12065497	0.93[CEU][hapmap];0.88[EUR][1000 genomes]
rs12082492	0.93[CEU][hapmap];0.90[EUR][1000 genomes]
rs12091129	0.85[CEU][hapmap]
rs12097042	0.86[CEU][hapmap]
rs12724000	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12732902	0.93[CEU][hapmap];0.82[CHB][hapmap];0.92[EUR][1000 genomes]
rs1442568	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1442569	0.93[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap]
rs16832305	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16832366	0.85[CEU][hapmap]
rs3931875	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4845237	0.93[CEU][hapmap];0.82[CHB][hapmap];0.92[EUR][1000 genomes]
rs61818785	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61818787	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6658194	0.85[CEU][hapmap]
rs6660355	0.85[CEU][hapmap]
rs6691819	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6691910	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs718609	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs7527690	0.93[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7547903	0.86[CEU][hapmap]
rs980043	0.85[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv548532	chr1:189758772-190371671	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv932040	chr1:190005334-190914580	Enhancers Active TSS Bivalent/Poised TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv430013	chr1:190288297-190351677	Enhancers Active TSS Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:190338000-190350000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr1:190347600-190350000	Weak transcription	Fetal Intestine Large	intestine

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