Variant report

Variant	rs1879260
Chromosome Location	chr16:65076929-65076930
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr16:65076587..65078902-chr16:65080477..65083280,2	K562	blood:

Extended variants
information (count: 141 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:138)

rs_ID	r²[population]
rs1025311	0.93[ASN][1000 genomes]
rs1079008	0.97[ASN][1000 genomes]
rs12445593	0.81[ASN][1000 genomes]
rs12447201	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12597529	0.90[ASN][1000 genomes]
rs12925954	0.93[ASN][1000 genomes]
rs12926007	0.82[ASN][1000 genomes]
rs12935145	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1356823	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1520229	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1520230	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1520231	0.99[ASN][1000 genomes]
rs1520234	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1520241	0.90[ASN][1000 genomes]
rs1520243	0.96[ASN][1000 genomes]
rs1532418	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs16942779	0.81[ASN][1000 genomes]
rs16968098	0.81[ASN][1000 genomes]
rs16968101	0.81[ASN][1000 genomes]
rs16968102	0.81[ASN][1000 genomes]
rs1850966	0.98[ASN][1000 genomes]
rs185394	0.86[ASN][1000 genomes]
rs1874457	1.00[ASN][1000 genomes]
rs1874458	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1874459	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1896755	0.81[ASN][1000 genomes]
rs1896756	0.81[ASN][1000 genomes]
rs1908723	0.99[ASN][1000 genomes]
rs2280396	0.98[ASN][1000 genomes]
rs257335	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs257336	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs257337	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs257341	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs257487	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs257490	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs257497	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs257498	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs257499	0.84[ASN][1000 genomes]
rs28216	0.94[ASN][1000 genomes]
rs34699531	0.81[ASN][1000 genomes]
rs34893901	0.81[ASN][1000 genomes]
rs35139	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35140	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35144	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35145	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35146	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35148	0.87[ASN][1000 genomes]
rs35149	0.86[ASN][1000 genomes]
rs35150	0.86[ASN][1000 genomes]
rs35152	0.86[ASN][1000 genomes]
rs35154	0.86[ASN][1000 genomes]
rs35155	0.86[ASN][1000 genomes]
rs35156	0.86[ASN][1000 genomes]
rs35157	0.85[ASN][1000 genomes]
rs35158	0.85[ASN][1000 genomes]
rs35159	0.85[ASN][1000 genomes]
rs35160	0.85[ASN][1000 genomes]
rs35161	0.85[ASN][1000 genomes]
rs35162	0.85[ASN][1000 genomes]
rs35163	0.86[ASN][1000 genomes]
rs35164	0.86[ASN][1000 genomes]
rs35165	0.83[ASN][1000 genomes]
rs35166	0.86[ASN][1000 genomes]
rs35167	0.86[ASN][1000 genomes]
rs35169	0.86[ASN][1000 genomes]
rs35170	0.86[ASN][1000 genomes]
rs35171	0.86[ASN][1000 genomes]
rs35176	0.98[ASN][1000 genomes]
rs35177	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35178	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35179	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35180	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35188	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35191	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35192	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35193	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35195	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35198	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35199	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35200	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35203	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35204	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35205	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35206	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35208	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35209	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35210	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35214	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35215	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35216	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35218	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35219	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35224	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35226	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35263777	0.97[ASN][1000 genomes]
rs35557609	0.81[ASN][1000 genomes]
rs35891857	0.81[ASN][1000 genomes]
rs369499	0.86[ASN][1000 genomes]
rs382418	0.86[ASN][1000 genomes]
rs385317	0.81[ASN][1000 genomes]
rs388039	0.86[ASN][1000 genomes]
rs396950	0.86[ASN][1000 genomes]
rs400182	0.86[ASN][1000 genomes]
rs40113	0.86[ASN][1000 genomes]
rs40115	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs40116	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs40510	0.86[ASN][1000 genomes]
rs406925	0.86[ASN][1000 genomes]
rs408330	0.81[ASN][1000 genomes]
rs422274	0.86[ASN][1000 genomes]
rs42863	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs436962	0.82[ASN][1000 genomes]
rs437402	0.86[ASN][1000 genomes]
rs437408	0.86[ASN][1000 genomes]
rs4393595	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs447096	0.86[ASN][1000 genomes]
rs453866	0.81[ASN][1000 genomes]
rs462735	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4967858	0.81[ASN][1000 genomes]
rs4967859	0.81[ASN][1000 genomes]
rs4967860	0.81[ASN][1000 genomes]
rs4967861	0.81[ASN][1000 genomes]
rs4967862	0.81[ASN][1000 genomes]
rs4967866	0.90[ASN][1000 genomes]
rs4967875	0.81[ASN][1000 genomes]
rs4967876	0.81[ASN][1000 genomes]
rs4967882	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59954387	0.98[ASN][1000 genomes]
rs610896	0.81[ASN][1000 genomes]
rs611241	0.81[ASN][1000 genomes]
rs611322	0.81[ASN][1000 genomes]
rs62042237	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8048383	0.81[ASN][1000 genomes]
rs878359	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs909003	0.91[ASN][1000 genomes]
rs973200	0.91[ASN][1000 genomes]
rs990639	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9935608	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948640	chr16:64859061-65112790	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
2	nsv833260	chr16:65050647-65218759	Enhancers Strong transcription Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1831	chr16:65071976-65106105	Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:65039000-65089600	Weak transcription	Fetal Intestine Large	intestine
2	chr16:65039600-65079800	Weak transcription	Fetal Muscle Trunk	muscle
3	chr16:65040600-65086000	Weak transcription	HMEC	breast
4	chr16:65047200-65078400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr16:65058600-65104400	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr16:65059800-65078400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr16:65066800-65078400	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr16:65069800-65105000	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr16:65071800-65077400	Weak transcription	NHLF	lung
10	chr16:65072600-65077800	Weak transcription	Brain Germinal Matrix	brain
11	chr16:65072800-65077200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr16:65072800-65078000	Weak transcription	Fetal Brain Female	brain
13	chr16:65072800-65078400	Weak transcription	Fetal Brain Male	brain
14	chr16:65072800-65088800	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr16:65072800-65096200	Weak transcription	Colon Smooth Muscle	Colon
16	chr16:65073000-65078600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr16:65074400-65077600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
18	chr16:65074400-65084800	Strong transcription	Fetal Lung	lung
19	chr16:65074400-65094000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr16:65074600-65077800	Strong transcription	Osteobl	bone
21	chr16:65074800-65077200	Strong transcription	NHDF-Ad	bronchial
22	chr16:65074800-65077800	Strong transcription	NH-A	brain
23	chr16:65074800-65078200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr16:65075000-65077000	Strong transcription	Fetal Stomach	stomach
25	chr16:65075000-65082200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr16:65075200-65077400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr16:65075200-65077400	Strong transcription	Stomach Smooth Muscle	stomach
28	chr16:65075200-65077600	Strong transcription	HSMM	muscle
29	chr16:65075200-65077800	Strong transcription	HSMMtube	muscle
30	chr16:65075200-65078000	Weak transcription	Fetal Kidney	kidney
31	chr16:65075600-65080400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr16:65075800-65078600	Weak transcription	Aorta	Aorta
33	chr16:65076000-65079200	Enhancers	Brain Hippocampus Middle	brain
34	chr16:65076200-65077400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr16:65076200-65077800	Genic enhancers	Fetal Muscle Leg	muscle
36	chr16:65076200-65079000	Enhancers	Brain Angular Gyrus	brain
37	chr16:65076400-65077400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr16:65076400-65078800	Strong transcription	Ovary	ovary
39	chr16:65076400-65079000	Enhancers	Brain Cingulate Gyrus	brain
40	chr16:65076400-65079600	Enhancers	Brain Inferior Temporal Lobe	brain
41	chr16:65076600-65077000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr16:65076600-65079800	Enhancers	Brain Substantia Nigra	brain
43	chr16:65076600-65081200	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr16:65076800-65077000	Enhancers	Spleen	Spleen
45	chr16:65076800-65079200	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr16:65076800-65080200	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr16:65076800-65080200	Enhancers	Brain Anterior Caudate	brain

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