Variant report

Variant	rs4456409
Chromosome Location	chr14:65897967-65897968
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10483780	0.82[EUR][1000 genomes]
rs11158596	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11620749	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11627084	0.82[EUR][1000 genomes]
rs11628196	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11851576	0.86[ASN][1000 genomes]
rs12589698	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12879202	0.86[EUR][1000 genomes]
rs12879971	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12883815	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12890123	0.84[EUR][1000 genomes]
rs12890978	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12892058	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12895074	0.84[EUR][1000 genomes]
rs1953416	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2002692	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2184603	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2411816	0.82[EUR][1000 genomes]
rs2411822	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3825640	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4899179	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4902400	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs67071794	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7153297	0.83[EUR][1000 genomes]
rs867972	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs883081	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs883082	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][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	nsv1036403	chr14:65724229-66208114	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
2	nsv1043943	chr14:65782466-66698411	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	55 gene(s)	inside rSNPs	diseases
3	nsv542120	chr14:65782466-66698411	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	55 gene(s)	inside rSNPs	diseases
4	nsv1039168	chr14:65811750-66308343	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:65880600-65899400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr14:65880600-65899400	Weak transcription	Small Intestine	intestine
3	chr14:65880800-65898000	Weak transcription	Gastric	stomach
4	chr14:65880800-65904800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr14:65881000-65899400	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr14:65881000-65902600	Weak transcription	Fetal Intestine Small	intestine
7	chr14:65881800-65901000	Weak transcription	Primary hematopoietic stem cells	blood
8	chr14:65881800-65902000	Weak transcription	Primary B cells from cord blood	blood
9	chr14:65881800-65902000	Weak transcription	Fetal Intestine Large	intestine
10	chr14:65882600-65900200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr14:65886600-65905600	Weak transcription	Duodenum Mucosa	Duodenum
12	chr14:65886800-65898000	Weak transcription	Dnd41	blood
13	chr14:65887400-65898400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr14:65888200-65898800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr14:65888200-65898800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr14:65888400-65898800	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr14:65888400-65905400	Weak transcription	Ovary	ovary
18	chr14:65888800-65898800	Weak transcription	Primary B cells from peripheral blood	blood
19	chr14:65889000-65898800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr14:65889000-65901400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr14:65889200-65898000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr14:65889200-65899400	Weak transcription	Colon Smooth Muscle	Colon
23	chr14:65889200-65899400	Weak transcription	NHDF-Ad	bronchial
24	chr14:65891000-65898800	Weak transcription	Stomach Mucosa	stomach
25	chr14:65891000-65899200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr14:65891200-65900400	Weak transcription	Pancreatic Islets	Pancreatic Islet
27	chr14:65891600-65904000	Weak transcription	Lung	lung
28	chr14:65891800-65898800	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr14:65891800-65904400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
30	chr14:65892800-65929600	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr14:65893000-65917600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr14:65893400-65898400	Weak transcription	Osteobl	bone
33	chr14:65893600-65902200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr14:65893800-65898400	Weak transcription	Muscle Satellite Cultured Cells	--
35	chr14:65894400-65898600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr14:65895000-65898600	Weak transcription	GM12878-XiMat	blood
37	chr14:65895200-65899200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr14:65895400-65898400	Weak transcription	Brain Cingulate Gyrus	brain
39	chr14:65895400-65898800	Weak transcription	Primary T helper cells PMA-I stimulated	--
40	chr14:65895600-65898800	Weak transcription	Brain Substantia Nigra	brain
41	chr14:65895600-65899600	Weak transcription	Brain Angular Gyrus	brain
42	chr14:65895800-65898200	Weak transcription	Brain Anterior Caudate	brain
43	chr14:65895800-65898400	Weak transcription	K562	blood
44	chr14:65895800-65898600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
45	chr14:65895800-65899200	Weak transcription	Brain Inferior Temporal Lobe	brain
46	chr14:65895800-65899400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr14:65895800-65899400	Weak transcription	Brain Hippocampus Middle	brain
48	chr14:65896000-65899800	Weak transcription	Primary T cells from cord blood	blood
49	chr14:65896200-65898600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr14:65897000-65898000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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