Variant report

Variant	rs9904880
Chromosome Location	chr17:33655314-33655315
allele	G/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:52)

rs_ID	r²[population]
rs1000457	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1081681	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11080339	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11080341	0.84[AMR][1000 genomes]
rs11080342	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11080343	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11869333	0.87[ASN][1000 genomes]
rs11871908	0.87[ASN][1000 genomes]
rs12449840	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12450322	0.86[ASN][1000 genomes]
rs12451576	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12453983	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1399284	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1514490	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1533329	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1548182	0.87[ASN][1000 genomes]
rs1554043	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1554045	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1554046	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1949263	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1961017	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2376046	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2928997	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35716910	0.84[AMR][1000 genomes]
rs3902986	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4074590	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4074591	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4503848	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4795071	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4796071	0.87[ASN][1000 genomes]
rs4796073	0.88[ASN][1000 genomes]
rs4796074	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6505458	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6505459	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6505460	0.89[ASN][1000 genomes]
rs6505461	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6505462	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7209244	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7211671	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7215259	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7219864	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7220345	0.87[ASN][1000 genomes]
rs7220501	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs772104	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs8068794	0.87[ASN][1000 genomes]
rs8070528	0.88[ASN][1000 genomes]
rs8079268	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9893160	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9898340	0.87[ASN][1000 genomes]
rs9905691	0.87[ASN][1000 genomes]
rs9912824	0.85[ASN][1000 genomes]
rs9915102	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1055936	chr17:33327166-33884184	Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	112 gene(s)	inside rSNPs	diseases
2	nsv543317	chr17:33327166-33884184	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	112 gene(s)	inside rSNPs	diseases
3	nsv534371	chr17:33456878-34094068	Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	137 gene(s)	inside rSNPs	diseases
4	nsv574741	chr17:33552275-33827134	Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	72 gene(s)	inside rSNPs	diseases
5	nsv457724	chr17:33609247-33691409	Enhancers Weak transcription Active TSS Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv574742	chr17:33609247-33691409	Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:33641200-33668600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr17:33650600-33662000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr17:33651200-33660200	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr17:33651800-33657000	Weak transcription	Primary T cells from cord blood	blood
5	chr17:33652000-33661000	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr17:33652200-33655400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr17:33652200-33660400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr17:33652200-33663600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr17:33652400-33660000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr17:33652600-33659800	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr17:33653000-33671200	Weak transcription	Skeletal Muscle Female	skeletal muscle

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