Variant report

Variant	rs954354
Chromosome Location	chr1:86662478-86662479
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs11161752	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs11161754	0.81[EUR][1000 genomes]
rs11161755	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs11161756	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs11161757	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs11161758	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs11161759	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs11578172	0.82[EUR][1000 genomes]
rs11579660	1.00[CEU][hapmap]
rs11581251	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11581326	0.90[EUR][1000 genomes]
rs11583102	0.90[EUR][1000 genomes]
rs11583117	0.90[EUR][1000 genomes]
rs11583120	0.90[EUR][1000 genomes]
rs12072489	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs12074275	0.81[EUR][1000 genomes]
rs12076366	0.87[CEU][hapmap]
rs1336052	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs1336055	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1414601	0.81[EUR][1000 genomes]
rs1507267	0.90[EUR][1000 genomes]
rs1507268	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1507276	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs1507282	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs1507283	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs17128866	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs2039601	0.90[EUR][1000 genomes]
rs2174768	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2279948	0.98[EUR][1000 genomes]
rs2892908	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs41287729	0.88[EUR][1000 genomes]
rs4631724	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs59694883	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6660694	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs6668627	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6676847	0.90[EUR][1000 genomes]
rs6697869	0.90[EUR][1000 genomes]
rs72716183	0.82[EUR][1000 genomes]
rs72716185	0.86[EUR][1000 genomes]
rs72716190	0.81[EUR][1000 genomes]
rs72716192	0.86[EUR][1000 genomes]
rs72716194	0.81[EUR][1000 genomes]
rs72716202	0.81[EUR][1000 genomes]
rs72718016	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72718019	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72718023	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72718033	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72718037	0.98[EUR][1000 genomes]
rs7416003	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7531445	0.90[EUR][1000 genomes]
rs7536402	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv546722	chr1:86278315-86891073	Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1010312	chr1:86469730-86686426	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1012467	chr1:86494935-86686426	Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Bivalent Enhancer Active TSS Strong transcription Weak transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1009092	chr1:86532988-86724805	Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Active TSS Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv535024	chr1:86532988-86724805	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv830481	chr1:86550274-86737290	Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv1003838	chr1:86591841-87212231	Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:86656400-86665800	Enhancers	Fetal Lung	lung
2	chr1:86659800-86663400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr1:86659800-86670600	Weak transcription	Psoas Muscle	Psoas
4	chr1:86660200-86662800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr1:86661200-86663400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr1:86661200-86672400	Weak transcription	Colon Smooth Muscle	Colon
7	chr1:86661800-86663000	Weak transcription	Brain Germinal Matrix	brain
8	chr1:86662400-86662800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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