Variant report

Variant	rs2294789
Chromosome Location	chr6:53785276-53785277
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1076701	0.81[CEU][hapmap]
rs1076702	0.82[CEU][hapmap]
rs13216331	0.82[CHB][hapmap];0.87[JPT][hapmap]
rs2073020	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2076495	0.90[ASN][1000 genomes]
rs2294790	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2294791	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3777661	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4455653	0.87[ASN][1000 genomes]
rs4516937	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs4563705	0.85[CHB][hapmap];0.89[JPT][hapmap]
rs6903399	0.81[EUR][1000 genomes]
rs6934324	0.85[JPT][hapmap]
rs7749273	0.83[CHB][hapmap];0.87[JPT][hapmap]
rs7763482	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs7776124	0.82[CHB][hapmap];0.87[JPT][hapmap]
rs9349685	0.86[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9357776	0.82[CEU][hapmap]
rs9357778	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9370233	0.88[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs9370241	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9370244	0.86[AMR][1000 genomes]
rs9370246	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9382235	0.83[CHB][hapmap];0.87[JPT][hapmap]
rs9382243	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs9382244	0.81[EUR][1000 genomes]
rs9382246	0.81[EUR][1000 genomes]
rs9382248	0.85[EUR][1000 genomes]
rs9382252	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9382253	0.89[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs9382254	0.87[CEU][hapmap];1.00[YRI][hapmap];0.92[EUR][1000 genomes]
rs9382256	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9395878	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs9395881	0.81[EUR][1000 genomes]
rs9474646	0.82[CHB][hapmap];0.87[JPT][hapmap]

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	nsv1034955	chr6:53447607-53931055	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv830664	chr6:53698021-53825270	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:53759200-53787600	Weak transcription	Spleen	Spleen
2	chr6:53759200-53794400	Weak transcription	Right Ventricle	heart
3	chr6:53759400-53786400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr6:53759600-53789800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr6:53760400-53789400	Weak transcription	Stomach Mucosa	stomach
6	chr6:53760400-53791200	Weak transcription	Hela-S3	cervix
7	chr6:53760600-53793600	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr6:53761000-53785400	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr6:53761400-53787400	Weak transcription	HMEC	breast
10	chr6:53761400-53791200	Weak transcription	Colon Smooth Muscle	Colon
11	chr6:53761600-53790800	Weak transcription	Fetal Heart	heart
12	chr6:53761800-53786800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr6:53762000-53791200	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr6:53762000-53791600	Weak transcription	Fetal Lung	lung
15	chr6:53762200-53786800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr6:53768800-53796000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr6:53769000-53785400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr6:53769200-53790400	Weak transcription	Placenta Amnion	Placenta Amnion
19	chr6:53770000-53795800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr6:53770600-53787400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr6:53772000-53787600	Weak transcription	Pancreas	Pancrea
22	chr6:53772000-53803000	Weak transcription	Lung	lung
23	chr6:53776000-53786600	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr6:53776000-53790600	Weak transcription	Brain Germinal Matrix	brain
25	chr6:53776200-53786400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr6:53776400-53786600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr6:53776600-53789200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr6:53776800-53791000	Weak transcription	HUVEC	blood vessel
29	chr6:53777600-53790600	Strong transcription	Fetal Thymus	thymus
30	chr6:53778000-53787800	Strong transcription	Dnd41	blood
31	chr6:53778000-53791800	Weak transcription	Small Intestine	intestine
32	chr6:53779200-53787600	Weak transcription	Aorta	Aorta
33	chr6:53779400-53787600	Weak transcription	H9 Cell Line	embryonic stem cell
34	chr6:53779600-53785400	Weak transcription	Stomach Smooth Muscle	stomach
35	chr6:53779600-53787400	Weak transcription	Esophagus	oesophagus
36	chr6:53779600-53791400	Weak transcription	Placenta	Placenta
37	chr6:53779800-53785400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr6:53780200-53790400	Weak transcription	Gastric	stomach
39	chr6:53781000-53787200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr6:53781000-53789200	Weak transcription	Primary B cells from peripheral blood	blood
41	chr6:53781000-53791200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr6:53782200-53785400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
43	chr6:53782200-53787800	Weak transcription	Brain Angular Gyrus	brain
44	chr6:53782400-53789400	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr6:53782400-53790400	Weak transcription	Brain Cingulate Gyrus	brain
46	chr6:53782600-53786200	Weak transcription	Fetal Kidney	kidney
47	chr6:53782600-53787200	Weak transcription	HSMM	muscle
48	chr6:53783000-53791400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr6:53783200-53789400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr6:53783400-53787600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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