Variant report

Variant	rs56778943
Chromosome Location	chr10:96258622-96258623
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs1575935	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2094295	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2094297	0.86[AFR][1000 genomes]
rs55783943	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55852558	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55902049	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs56104261	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56113807	1.00[EUR][1000 genomes]
rs56188429	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56281613	0.92[AFR][1000 genomes]
rs56309155	1.00[AMR][1000 genomes]
rs56666225	1.00[EUR][1000 genomes]
rs56735703	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57096906	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs57257088	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs57501369	0.86[AFR][1000 genomes]
rs57721947	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58262373	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs58283794	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58430331	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58643119	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs58691803	0.86[AFR][1000 genomes]
rs58776336	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58984186	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs59365366	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59962294	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60231225	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60234155	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs61410136	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs61668937	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7084812	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7101234	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74150807	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74150809	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74150810	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74150811	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74150813	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74150814	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74150816	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74150822	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74150830	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74150837	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74150849	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74150850	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74150854	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74150888	0.86[AFR][1000 genomes]
rs74150893	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74152308	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74152320	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74153321	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74153322	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74153323	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74153341	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74153344	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74153347	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74153348	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74153350	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74153353	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7900670	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7902619	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2761616	chr10:95966768-96303701	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv497859	chr10:96058024-97027747	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	esv1819509	chr10:96064300-96361776	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
4	nsv1053747	chr10:96211618-96366396	Strong transcription ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Genic enhancers 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	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96211600-96292200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr10:96219800-96283400	Weak transcription	Lung	lung
3	chr10:96223200-96293600	Weak transcription	NHDF-Ad	bronchial
4	chr10:96236400-96268600	Weak transcription	HSMMtube	muscle
5	chr10:96237600-96258800	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr10:96237600-96271400	Weak transcription	Placenta	Placenta
7	chr10:96238200-96273400	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr10:96240200-96271000	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr10:96244000-96262200	Weak transcription	Fetal Muscle Trunk	muscle
10	chr10:96244000-96282600	Weak transcription	Duodenum Mucosa	Duodenum
11	chr10:96244400-96283600	Weak transcription	Pancreas	Pancrea
12	chr10:96244400-96304600	Weak transcription	Aorta	Aorta
13	chr10:96245200-96267000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr10:96246800-96261400	Weak transcription	Fetal Intestine Large	intestine
15	chr10:96247400-96267400	Weak transcription	Fetal Muscle Leg	muscle
16	chr10:96248000-96273800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr10:96249000-96267800	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr10:96249200-96267400	Weak transcription	Left Ventricle	heart
19	chr10:96249200-96286200	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr10:96249400-96268600	Weak transcription	Colon Smooth Muscle	Colon
21	chr10:96249400-96288600	Weak transcription	Gastric	stomach
22	chr10:96249600-96267800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr10:96250400-96281000	Weak transcription	Brain Cingulate Gyrus	brain
24	chr10:96250600-96261000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr10:96250600-96271400	Weak transcription	Stomach Smooth Muscle	stomach
26	chr10:96250800-96258800	Weak transcription	Fetal Lung	lung
27	chr10:96250800-96268600	Weak transcription	Brain Hippocampus Middle	brain
28	chr10:96250800-96281000	Weak transcription	Brain Angular Gyrus	brain
29	chr10:96250800-96294000	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr10:96250800-96297400	Weak transcription	Small Intestine	intestine
31	chr10:96251000-96271600	Weak transcription	Brain Substantia Nigra	brain
32	chr10:96251200-96267200	Weak transcription	Duodenum Smooth Muscle	Duodenum
33	chr10:96251600-96260000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
34	chr10:96255600-96267400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr10:96256000-96267400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr10:96256000-96267600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr10:96256000-96268600	Weak transcription	Ovary	ovary
38	chr10:96256200-96271400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr10:96256200-96283600	Weak transcription	Osteobl	bone
40	chr10:96256400-96271400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr10:96256600-96259800	Weak transcription	Primary B cells from peripheral blood	blood
42	chr10:96256800-96258800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr10:96256800-96271000	Weak transcription	Muscle Satellite Cultured Cells	--
44	chr10:96256800-96283800	Weak transcription	Liver	Liver
45	chr10:96257000-96293400	Weak transcription	HepG2	liver
46	chr10:96257200-96259600	Weak transcription	HSMM	muscle
47	chr10:96257200-96271000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr10:96258000-96259400	Strong transcription	Adipose Nuclei	Adipose
49	chr10:96258200-96258800	Strong transcription	Fetal Intestine Small	intestine
50	chr10:96258400-96258800	Strong transcription	Fetal Stomach	stomach

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