Variant report

Variant	rs28414896
Chromosome Location	chr17:16454669-16454670
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10491106	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16959797	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16959800	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16959821	0.86[AMR][1000 genomes]
rs16959828	0.86[AMR][1000 genomes]
rs57442832	0.81[AMR][1000 genomes]
rs57502248	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6502510	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7211050	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7213263	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7214188	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7214679	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7217433	0.98[EUR][1000 genomes]
rs7221221	0.98[EUR][1000 genomes]
rs7221367	0.98[EUR][1000 genomes]
rs7224723	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73982005	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs8066499	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs8066627	0.96[EUR][1000 genomes]
rs8077233	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9889318	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9889728	0.81[AMR][1000 genomes]
rs9892027	0.92[EUR][1000 genomes]
rs9893954	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9904252	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9911849	0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv934185	chr17:15552960-16551197	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	190 gene(s)	inside rSNPs	diseases
2	esv3330182	chr17:15652014-16569534	Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	177 gene(s)	inside rSNPs	diseases
3	esv3446844	chr17:15654843-16572246	Enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	177 gene(s)	inside rSNPs	diseases
4	nsv1063459	chr17:15804228-16543593	Weak transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	164 gene(s)	inside rSNPs	diseases
5	nsv1063764	chr17:16171649-16662914	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	120 gene(s)	inside rSNPs	diseases
6	nsv1061463	chr17:16245878-16490691	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	99 gene(s)	inside rSNPs	diseases
7	nsv543216	chr17:16245878-16490691	Strong transcription Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	99 gene(s)	inside rSNPs	diseases
8	nsv428668	chr17:16265210-16455285	Weak transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	89 gene(s)	inside rSNPs	diseases
9	nsv1058448	chr17:16389870-16926287	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:16440200-16456000	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr17:16447400-16463200	ZNF genes & repeats	Liver	Liver
3	chr17:16451200-16463200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr17:16452800-16459600	ZNF genes & repeats	Brain Anterior Caudate	brain
5	chr17:16452800-16460600	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
6	chr17:16452800-16463200	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr17:16452800-16463200	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
8	chr17:16453000-16456000	Weak transcription	Fetal Thymus	thymus
9	chr17:16453400-16460200	ZNF genes & repeats	Adipose Nuclei	Adipose
10	chr17:16453600-16463200	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
11	chr17:16453800-16457400	Weak transcription	Fetal Stomach	stomach
12	chr17:16453800-16459400	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
13	chr17:16453800-16459600	ZNF genes & repeats	Duodenum Mucosa	Duodenum
14	chr17:16453800-16459600	ZNF genes & repeats	Psoas Muscle	Psoas
15	chr17:16453800-16462200	ZNF genes & repeats	Primary B cells from cord blood	blood
16	chr17:16454000-16459600	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
17	chr17:16454200-16459400	ZNF genes & repeats	Primary T helper memory cells from peripheral blood 1	blood
18	chr17:16454200-16459800	ZNF genes & repeats	Brain Germinal Matrix	brain
19	chr17:16454200-16460000	ZNF genes & repeats	Fetal Brain Female	brain
20	chr17:16454400-16457200	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
21	chr17:16454400-16457400	ZNF genes & repeats	HSMM	muscle
22	chr17:16454400-16458000	ZNF genes & repeats	Brain Cingulate Gyrus	brain
23	chr17:16454400-16459000	ZNF genes & repeats	Brain Substantia Nigra	brain
24	chr17:16454400-16460000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
25	chr17:16454400-16463200	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr17:16454600-16457400	ZNF genes & repeats	HSMMtube	muscle
27	chr17:16454600-16459600	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
28	chr17:16454600-16460200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr17:16454600-16463200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr17:16454600-16467600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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