Variant report

Variant	rs6886876
Chromosome Location	chr5:61776711-61776712
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs16890603	1.00[AMR][1000 genomes]
rs16890718	1.00[AMR][1000 genomes]
rs16890722	1.00[AMR][1000 genomes]
rs16890748	1.00[AMR][1000 genomes]
rs16890754	1.00[AMR][1000 genomes]
rs16890773	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16890775	1.00[AMR][1000 genomes]
rs16890823	1.00[AMR][1000 genomes]
rs17349793	1.00[AMR][1000 genomes]
rs2053695	1.00[AMR][1000 genomes]
rs58504293	1.00[AMR][1000 genomes]
rs60001470	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60115750	1.00[AMR][1000 genomes]
rs61118775	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6864377	1.00[AMR][1000 genomes]
rs6868330	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6873199	1.00[AMR][1000 genomes]
rs6875068	1.00[AMR][1000 genomes]
rs6877630	1.00[AMR][1000 genomes]
rs6883414	1.00[AMR][1000 genomes]
rs6886500	1.00[AMR][1000 genomes]
rs6887244	1.00[AMR][1000 genomes]
rs6888917	1.00[AMR][1000 genomes]
rs6893193	1.00[AMR][1000 genomes]
rs6897192	1.00[AMR][1000 genomes]
rs73102077	1.00[AMR][1000 genomes]
rs73104048	1.00[AMR][1000 genomes]
rs73105912	1.00[AMR][1000 genomes]
rs73105928	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73105939	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73105968	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73105990	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73105993	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73106001	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73108048	1.00[AMR][1000 genomes]
rs73108058	1.00[AMR][1000 genomes]
rs73108070	1.00[AMR][1000 genomes]
rs73108074	1.00[AMR][1000 genomes]
rs73108089	1.00[AMR][1000 genomes]
rs73108092	1.00[AMR][1000 genomes]
rs73110006	1.00[AMR][1000 genomes]
rs73110010	1.00[AMR][1000 genomes]
rs73117401	1.00[AMR][1000 genomes]
rs73119503	1.00[AMR][1000 genomes]
rs73119521	1.00[AMR][1000 genomes]
rs73119543	1.00[AMR][1000 genomes]
rs7711860	1.00[AMR][1000 genomes]
rs7725660	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7728166	1.00[AMR][1000 genomes]
rs7729131	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024090	chr5:61258759-61921150	Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv1020255	chr5:61451792-62031365	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	nsv1027539	chr5:61457762-62000008	Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv1033578	chr5:61606610-61911153	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	nsv1025145	chr5:61624735-61824265	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
6	nsv1029708	chr5:61625813-61877628	Bivalent/Poised TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
7	nsv881728	chr5:61630879-61857577	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
8	nsv598348	chr5:61650843-61895124	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
9	esv35035	chr5:61657943-61792243	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
10	nsv881729	chr5:61719506-61857577	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv881730	chr5:61750667-61883581	Weak transcription Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:61709800-61809200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr5:61728400-61807600	Weak transcription	Psoas Muscle	Psoas
3	chr5:61728800-61838200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr5:61730000-61834200	Weak transcription	Gastric	stomach
5	chr5:61732800-61805200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr5:61739200-61862800	Weak transcription	Brain Substantia Nigra	brain
7	chr5:61739600-61787800	Weak transcription	Brain Cingulate Gyrus	brain
8	chr5:61744800-61838600	Weak transcription	Colonic Mucosa	Colon
9	chr5:61746200-61783600	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr5:61748000-61794600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr5:61748000-61862800	Weak transcription	Right Ventricle	heart
12	chr5:61748600-61784400	Weak transcription	Lung	lung
13	chr5:61748600-61787000	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr5:61749000-61786200	Weak transcription	Brain Anterior Caudate	brain
15	chr5:61749400-61779400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr5:61750600-61785200	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr5:61750600-61786000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr5:61757600-61792200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr5:61758800-61890000	Weak transcription	Small Intestine	intestine
20	chr5:61759000-61834200	Weak transcription	Esophagus	oesophagus
21	chr5:61759800-61790000	Weak transcription	Primary neutrophils fromperipheralblood	blood
22	chr5:61760600-61781400	Weak transcription	Fetal Intestine Small	intestine
23	chr5:61760800-61847200	Weak transcription	Rectal Smooth Muscle	rectum
24	chr5:61763400-61799400	Weak transcription	Fetal Heart	heart
25	chr5:61763800-61809600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr5:61764000-61833800	Weak transcription	Fetal Brain Female	brain
27	chr5:61764000-61858200	Weak transcription	Placenta	Placenta
28	chr5:61764200-61780000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr5:61764200-61781200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr5:61764200-61781400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr5:61764200-61781400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr5:61764200-61784600	Weak transcription	Skeletal Muscle Female	skeletal muscle
33	chr5:61764200-61786200	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr5:61764200-61786200	Weak transcription	Fetal Muscle Trunk	muscle
35	chr5:61764200-61787000	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr5:61764200-61794800	Weak transcription	Left Ventricle	heart
37	chr5:61764200-61796400	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr5:61764200-61798800	Weak transcription	Spleen	Spleen
39	chr5:61764200-61818000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr5:61764200-61821200	Weak transcription	Aorta	Aorta
41	chr5:61764200-61826600	Weak transcription	Brain Hippocampus Middle	brain
42	chr5:61764200-61827000	Weak transcription	Thymus	Thymus
43	chr5:61764200-61830000	Weak transcription	Brain Angular Gyrus	brain
44	chr5:61764200-61895800	Weak transcription	Pancreas	Pancrea
45	chr5:61764400-61781200	Weak transcription	Primary monocytes fromperipheralblood	blood
46	chr5:61764400-61781600	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr5:61764400-61792400	Weak transcription	Stomach Smooth Muscle	stomach
48	chr5:61764400-61796600	Weak transcription	Cortex derived primary cultured neurospheres	brain
49	chr5:61764400-61801200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
50	chr5:61764800-61786200	Weak transcription	Fetal Kidney	kidney

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