Variant report

Variant	rs28521398
Chromosome Location	chr9:7616164-7616165
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10114819	1.00[AMR][1000 genomes]
rs10976374	1.00[AMR][1000 genomes]
rs12340456	1.00[AMR][1000 genomes]
rs12346396	1.00[AMR][1000 genomes]
rs12347135	1.00[AMR][1000 genomes]
rs12349991	1.00[AMR][1000 genomes]
rs12351152	1.00[AMR][1000 genomes]
rs12352263	1.00[AMR][1000 genomes]
rs12353485	1.00[AMR][1000 genomes]
rs12353527	1.00[AMR][1000 genomes]
rs13440369	1.00[AMR][1000 genomes]
rs16926320	1.00[AMR][1000 genomes]
rs28422475	1.00[AMR][1000 genomes]
rs28719617	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34566	chr9:7291742-7781370	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv818681	chr9:7292836-7781365	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1033077	chr9:7358832-7990735	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv539977	chr9:7358832-7990735	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv1029032	chr9:7431547-7764888	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv429985	chr9:7520274-7619121	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv429987	chr9:7522659-7619121	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv1028504	chr9:7523311-7682789	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv539978	chr9:7523311-7682789	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv892201	chr9:7524075-7742476	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	nsv1015795	chr9:7540787-7701648	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv892204	chr9:7582234-7626045	Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	nsv892205	chr9:7582673-7625060	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
14	nsv613266	chr9:7588854-7901308	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:7613000-7616800	Enhancers	Primary T helper naive cells from peripheral blood	blood
2	chr9:7613000-7616800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
3	chr9:7614200-7616800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
4	chr9:7614200-7616800	Enhancers	Primary T helper cells fromperipheralblood	blood
5	chr9:7614400-7616800	Enhancers	Primary T helper cells PMA-I stimulated	--
6	chr9:7614400-7617200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
7	chr9:7614600-7617200	Enhancers	Primary T cells from cord blood	blood
8	chr9:7614800-7616400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr9:7615200-7616400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr9:7615400-7616200	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr9:7615400-7616600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr9:7615600-7616400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr9:7615600-7626200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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