Variant report

Variant	rs12025566
Chromosome Location	chr1:169146582-169146583
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	chr1:169145267..169147530-chr1:169147859..169149397,2	K562	blood:

Extended variants
information (count: 68 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1011638	1.00[JPT][hapmap]
rs1018832	1.00[CEU][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10458388	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10458394	1.00[CEU][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10489417	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10494477	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs10494478	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs10800429	1.00[JPT][hapmap]
rs10800431	1.00[JPT][hapmap]
rs10800432	1.00[JPT][hapmap]
rs10800433	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10919062	1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10919070	1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10919071	1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10919074	0.89[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10919085	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919087	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919093	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919125	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10919127	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10919128	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10919144	1.00[JPT][hapmap]
rs10919147	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs12021696	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12022617	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs12028197	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12029800	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12029857	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12030541	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12030810	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12031371	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12035622	1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12036426	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12042082	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12042990	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs12045803	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12048188	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12401966	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12403181	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12405725	0.85[JPT][hapmap]
rs12406341	0.89[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12408636	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12410241	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12410387	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12410456	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12410548	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12567342	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs12568473	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs17345156	1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17345426	1.00[CEU][hapmap];0.85[JPT][hapmap]
rs2000321	1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2001155	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2001156	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2143290	0.85[JPT][hapmap];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs34323371	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3766074	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4497270	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4562680	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72706963	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs72706975	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7413522	1.00[JPT][hapmap]
rs7528142	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7556463	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869415	chr1:168467284-169153863	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
2	esv3522071	chr1:168978325-169339044	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
3	esv3522072	chr1:168978325-169339044	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
4	nsv831858	chr1:169022383-169179068	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
5	esv10418	chr1:169059628-169621268	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12025566	NME7	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169130400-169195200	Weak transcription	Pancreas	Pancrea
2	chr1:169131400-169149400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr1:169137600-169158000	Weak transcription	Primary T cells from cord blood	blood
4	chr1:169139000-169147000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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