Variant report

Variant	rs28663042
Chromosome Location	chr19:42985276-42985277
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 97 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs10401224	1.00[EUR][1000 genomes]
rs10402438	1.00[EUR][1000 genomes]
rs10403856	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10404650	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10406800	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10406972	1.00[EUR][1000 genomes]
rs10407085	1.00[EUR][1000 genomes]
rs10407155	1.00[EUR][1000 genomes]
rs10407842	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10408258	1.00[EUR][1000 genomes]
rs10408986	1.00[AMR][1000 genomes]
rs10409428	1.00[EUR][1000 genomes]
rs10409433	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10409939	1.00[EUR][1000 genomes]
rs10410129	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10410174	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10410653	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10411498	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10411908	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10413484	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10414695	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10415759	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10415999	1.00[EUR][1000 genomes]
rs10416535	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10417606	1.00[AMR][1000 genomes]
rs10418102	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10418312	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10418988	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10420327	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10421331	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10421409	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10421510	1.00[EUR][1000 genomes]
rs10421857	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10421902	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10422301	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10422867	1.00[EUR][1000 genomes]
rs10423812	1.00[EUR][1000 genomes]
rs10423959	1.00[EUR][1000 genomes]
rs10423978	1.00[EUR][1000 genomes]
rs10424402	1.00[EUR][1000 genomes]
rs10425003	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10425320	1.00[EUR][1000 genomes]
rs10425783	1.00[EUR][1000 genomes]
rs10426267	1.00[EUR][1000 genomes]
rs10426284	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11878207	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11878297	1.00[EUR][1000 genomes]
rs11879073	1.00[EUR][1000 genomes]
rs11879538	1.00[EUR][1000 genomes]
rs11880356	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11882107	1.00[EUR][1000 genomes]
rs11882801	1.00[EUR][1000 genomes]
rs12165130	1.00[EUR][1000 genomes]
rs13343322	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13343388	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13343719	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13343761	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13343834	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13343966	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13346831	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13346837	1.00[EUR][1000 genomes]
rs13346879	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2229614	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28402882	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28463673	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28469564	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28474957	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28483598	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28496975	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28657829	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28675019	1.00[EUR][1000 genomes]
rs28675764	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28686771	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28699037	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28711448	1.00[EUR][1000 genomes]
rs28715574	1.00[EUR][1000 genomes]
rs33919763	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35707383	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36089262	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41407146	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59870753	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60950516	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7246232	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7248473	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7254853	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7255343	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7258727	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73552879	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73554520	1.00[EUR][1000 genomes]
rs73554531	1.00[EUR][1000 genomes]
rs73558432	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73560411	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8099885	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8109258	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9304602	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv526186	chr19:42676481-43203507	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	62 gene(s)	inside rSNPs	diseases
2	esv2422471	chr19:42733141-43669485	Genic enhancers Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	70 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:42979400-42990800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr19:42981200-43002000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr19:42981400-42993000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr19:42983200-42985800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr19:42983800-42986000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr19:42983800-42986200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
7	chr19:42984000-42986000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr19:42984000-42986000	Enhancers	Placenta	Placenta
9	chr19:42984000-42986600	Enhancers	Primary monocytes fromperipheralblood	blood
10	chr19:42984200-42986200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
11	chr19:42984400-42986000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
12	chr19:42984400-42986000	Enhancers	Primary T helper cells fromperipheralblood	blood
13	chr19:42984400-42986000	Enhancers	Adipose Nuclei	Adipose
14	chr19:42984400-42986200	Enhancers	Primary B cells from cord blood	blood
15	chr19:42984400-42986200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
16	chr19:42984400-42986600	Enhancers	Liver	Liver
17	chr19:42984600-42985600	Enhancers	Primary B cells from peripheral blood	blood
18	chr19:42984600-42985800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr19:42984600-42986000	Enhancers	Primary T cells from cord blood	blood
20	chr19:42984600-42986200	Enhancers	Primary T helper naive cells from peripheral blood	blood
21	chr19:42984600-42986200	Enhancers	Primary T helper cells PMA-I stimulated	--
22	chr19:42984800-42985400	Enhancers	Fetal Intestine Small	intestine
23	chr19:42984800-42985800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr19:42984800-42985800	Enhancers	Stomach Mucosa	stomach
25	chr19:42984800-42986000	Enhancers	Primary T cells fromperipheralblood	blood
26	chr19:42984800-42986000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr19:42984800-42986000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
28	chr19:42984800-42986000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
29	chr19:42984800-42986000	Enhancers	Sigmoid Colon	Sigmoid Colon
30	chr19:42984800-42986200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
31	chr19:42984800-42986200	Enhancers	Primary T killer memory cells from peripheral blood	blood
32	chr19:42985000-42985800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
33	chr19:42985000-42986000	Enhancers	Spleen	Spleen
34	chr19:42985200-42985400	Enhancers	HepG2	liver
35	chr19:42985200-42986000	Enhancers	A549	lung
36	chr19:42985200-42986200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
37	chr19:42985200-42986600	Enhancers	Monocytes-CD14+_RO01746	blood
38	chr19:42985200-42988400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr19:42985200-42993000	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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