Variant report

Variant	rs12338079
Chromosome Location	chr9:1759736-1759737
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10115242	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10119191	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10123338	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10123343	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10125104	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10125374	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10963141	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs28376429	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs28392959	0.81[AFR][1000 genomes]
rs28438884	1.00[AMR][1000 genomes]
rs28453079	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs28497469	0.81[AFR][1000 genomes]
rs28539677	0.93[AFR][1000 genomes]
rs28719043	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28872581	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs55756564	1.00[AMR][1000 genomes]
rs56708322	0.81[AFR][1000 genomes]
rs57884812	0.81[AFR][1000 genomes]
rs58060451	1.00[AMR][1000 genomes]
rs59483667	0.81[AFR][1000 genomes]
rs7042790	0.81[AFR][1000 genomes]
rs73640741	1.00[AMR][1000 genomes]
rs73640743	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73640745	0.83[AMR][1000 genomes]
rs7852211	0.93[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2752273	chr9:1062218-1824888	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1016148	chr9:1457605-2361750	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS 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	17 gene(s)	inside rSNPs	diseases
3	nsv539916	chr9:1457605-2361750	Weak transcription Genic enhancers Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv892035	chr9:1556054-1823605	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv1021712	chr9:1647840-2216839	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
6	nsv539921	chr9:1647840-2216839	Bivalent Enhancer Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
7	nsv892042	chr9:1721385-1762597	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv1025829	chr9:1722319-1759811	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv1015149	chr9:1722601-1759811	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv1030725	chr9:1723364-1760672	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
11	esv2764130	chr9:1723376-1778025	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv466067	chr9:1731076-1759811	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
13	nsv613077	chr9:1731076-1759811	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:1759000-1759800	Active TSS	GM12878-XiMat	blood
2	chr9:1759200-1760000	Enhancers	Fetal Muscle Leg	muscle
3	chr9:1759200-1760400	Enhancers	HUES6 Cell Line	embryonic stem cell
4	chr9:1759200-1760400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr9:1759400-1760000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
6	chr9:1759600-1760200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

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