Variant report

Variant	rs166838
Chromosome Location	chr17:19773443-19773444
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 119 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:114)

rs_ID	r²[population]
rs115326	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs118943	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs123081	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs123082	1.00[EUR][1000 genomes]
rs150122	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs157387	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs157388	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs157389	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs157390	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs157391	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs157392	1.00[EUR][1000 genomes]
rs157393	1.00[CEU][hapmap];0.81[CHB][hapmap]
rs157394	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs157395	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs157396	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs157397	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs157399	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs157400	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs157401	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs157402	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs157403	0.97[EUR][1000 genomes]
rs157405	1.00[CEU][hapmap]
rs157406	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs157408	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs157409	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs166839	0.97[EUR][1000 genomes]
rs169460	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs169512	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs169513	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs172186	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs176098	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs182214	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs184006	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs188138	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs192511	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs205088	0.82[CEU][hapmap];0.91[AMR][1000 genomes]
rs205090	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs205092	0.80[AMR][1000 genomes]
rs205093	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs205094	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs205096	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs205097	0.87[EUR][1000 genomes]
rs205098	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs205099	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs205100	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs205103	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs205104	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs205105	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs205106	1.00[EUR][1000 genomes]
rs205107	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs205108	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs205110	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs205111	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs205112	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs205113	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2385963	0.97[EUR][1000 genomes]
rs281325	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs281326	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs281327	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs281328	1.00[EUR][1000 genomes]
rs281329	0.90[EUR][1000 genomes]
rs281330	1.00[AMR][1000 genomes]
rs281331	1.00[EUR][1000 genomes]
rs281332	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs281333	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs281334	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs281336	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs281337	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs281338	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs281339	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs281341	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs281342	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs281343	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs281344	1.00[EUR][1000 genomes]
rs281345	1.00[EUR][1000 genomes]
rs281346	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs281347	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs281348	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs281349	1.00[EUR][1000 genomes]
rs281350	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs281351	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs281352	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs281353	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs281354	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs281355	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs281356	1.00[EUR][1000 genomes]
rs281365	0.97[EUR][1000 genomes]
rs3098902	1.00[EUR][1000 genomes]
rs3098905	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3098906	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3098907	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3098908	1.00[EUR][1000 genomes]
rs3098909	1.00[EUR][1000 genomes]
rs3098910	0.83[EUR][1000 genomes]
rs3101810	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3101811	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3101812	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3101813	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3101814	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3101815	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34372768	0.97[EUR][1000 genomes]
rs367383	0.97[EUR][1000 genomes]
rs379703	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs383948	0.97[EUR][1000 genomes]
rs383951	0.93[EUR][1000 genomes]
rs395130	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs421561	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs445958	0.97[EUR][1000 genomes]
rs4586510	0.97[EUR][1000 genomes]
rs4924800	0.97[EUR][1000 genomes]
rs4925047	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6587203	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7225417	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs917519	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1062853	chr17:19547912-20206601	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	nsv1063892	chr17:19564634-19808485	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv482398	chr17:19673458-19808039	Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Enhancers Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1057469	chr17:19696714-19787062	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv907868	chr17:19768924-20217122	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:19771200-19778800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
2	chr17:19771600-19774000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr17:19771600-19775000	Enhancers	Primary T cells fromperipheralblood	blood
4	chr17:19771600-19779000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr17:19771600-19787000	Weak transcription	Gastric	stomach
6	chr17:19771800-19775200	Enhancers	Primary T cells from cord blood	blood
7	chr17:19771800-19775200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
8	chr17:19771800-19776200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr17:19771800-19777800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr17:19771800-19780000	Weak transcription	Pancreas	Pancrea
11	chr17:19772000-19776000	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr17:19772200-19774400	Enhancers	Fetal Thymus	thymus
13	chr17:19772200-19776200	Weak transcription	Monocytes-CD14+_RO01746	blood
14	chr17:19773200-19774200	Enhancers	Thymus	Thymus
15	chr17:19773200-19774400	Enhancers	Primary T helper cells PMA-I stimulated	--
16	chr17:19773200-19774400	Enhancers	Primary T helper cells fromperipheralblood	blood
17	chr17:19773200-19774800	Enhancers	Primary T helper naive cells from peripheral blood	blood
18	chr17:19773400-19774800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
19	chr17:19773400-19775200	Enhancers	Primary T killer memory cells from peripheral blood	blood

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