Variant report

Variant	rs9504169
Chromosome Location	chr6:4609768-4609769
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs11751457	0.86[EUR][1000 genomes]
rs11756102	0.85[EUR][1000 genomes]
rs11962754	0.85[EUR][1000 genomes]
rs11964427	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17138534	0.88[EUR][1000 genomes]
rs2235724	0.88[EUR][1000 genomes]
rs377207	0.85[EUR][1000 genomes]
rs378901	0.83[EUR][1000 genomes]
rs385236	0.85[EUR][1000 genomes]
rs385884	0.85[EUR][1000 genomes]
rs390126	0.85[EUR][1000 genomes]
rs390617	0.80[EUR][1000 genomes]
rs413716	0.85[EUR][1000 genomes]
rs418563	0.85[EUR][1000 genomes]
rs421930	0.85[EUR][1000 genomes]
rs424137	0.85[EUR][1000 genomes]
rs438021	0.80[EUR][1000 genomes]
rs453768	0.85[EUR][1000 genomes]
rs4960004	0.85[EUR][1000 genomes]
rs4960009	0.86[EUR][1000 genomes]
rs601192	0.85[EUR][1000 genomes]
rs62384944	0.84[EUR][1000 genomes]
rs6911463	0.89[EUR][1000 genomes]
rs6912325	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6913171	0.85[EUR][1000 genomes]
rs7764724	1.00[ASN][1000 genomes]
rs9328262	0.85[EUR][1000 genomes]
rs9502199	0.85[EUR][1000 genomes]
rs9502200	0.85[EUR][1000 genomes]
rs9502206	0.86[EUR][1000 genomes]
rs9502208	0.89[ASN][1000 genomes]
rs9504151	0.85[EUR][1000 genomes]
rs9504156	0.88[EUR][1000 genomes]
rs9504159	0.86[EUR][1000 genomes]
rs9504163	0.84[EUR][1000 genomes]
rs9504165	0.88[EUR][1000 genomes]
rs9504166	0.88[EUR][1000 genomes]
rs9504168	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3421990	chr6:4446933-4659639	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv830576	chr6:4447554-4610604	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv3366530	chr6:4471528-4865322	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv883415	chr6:4546491-4629654	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv970370	chr6:4605843-4619763	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4604400-4610200	Weak transcription	Fetal Heart	heart
2	chr6:4606000-4616800	Enhancers	Fetal Muscle Leg	muscle
3	chr6:4606400-4610600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr6:4606400-4612200	Enhancers	Placenta	Placenta
5	chr6:4606800-4610600	Weak transcription	Left Ventricle	heart
6	chr6:4607000-4610400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr6:4607400-4611800	Weak transcription	Colon Smooth Muscle	Colon
8	chr6:4607600-4610400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr6:4607600-4610600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr6:4607600-4610800	Weak transcription	Right Ventricle	heart
11	chr6:4607600-4611000	Weak transcription	Rectal Smooth Muscle	rectum
12	chr6:4607600-4613200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr6:4607600-4615200	Weak transcription	Lung	lung
14	chr6:4608000-4610800	Weak transcription	Aorta	Aorta
15	chr6:4608000-4611000	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr6:4608000-4611200	Weak transcription	Fetal Brain Male	brain
17	chr6:4608000-4611800	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr6:4608200-4610400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr6:4608200-4610800	Weak transcription	Colonic Mucosa	Colon
20	chr6:4608200-4612000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
21	chr6:4608400-4610200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr6:4608400-4610200	Weak transcription	Osteobl	bone
23	chr6:4608400-4610400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr6:4608400-4610400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr6:4608400-4610400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr6:4608400-4610400	Weak transcription	Stomach Smooth Muscle	stomach
27	chr6:4608400-4610400	Weak transcription	HMEC	breast
28	chr6:4608400-4610600	Weak transcription	Ovary	ovary
29	chr6:4608600-4610200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr6:4608800-4609800	Enhancers	Spleen	Spleen
31	chr6:4608800-4610400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
32	chr6:4609000-4610200	Weak transcription	HUVEC	blood vessel
33	chr6:4609000-4610400	Weak transcription	Adipose Nuclei	Adipose
34	chr6:4609000-4610400	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr6:4609000-4610400	Weak transcription	NHDF-Ad	bronchial
36	chr6:4609200-4610400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr6:4609200-4613400	Weak transcription	Brain Inferior Temporal Lobe	brain
38	chr6:4609400-4609800	Enhancers	Brain Cingulate Gyrus	brain
39	chr6:4609400-4610400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr6:4609400-4610400	Weak transcription	Primary T cells fromperipheralblood	blood
41	chr6:4609400-4610400	Weak transcription	Brain Anterior Caudate	brain
42	chr6:4609400-4610400	Weak transcription	HSMMtube	muscle
43	chr6:4609400-4610600	Weak transcription	Fetal Muscle Trunk	muscle
44	chr6:4609400-4610800	Weak transcription	Esophagus	oesophagus
45	chr6:4609400-4611000	Weak transcription	Right Atrium	heart
46	chr6:4609400-4612200	Enhancers	Brain Hippocampus Middle	brain
47	chr6:4609400-4613200	Weak transcription	Psoas Muscle	Psoas
48	chr6:4609400-4613600	Weak transcription	Brain Substantia Nigra	brain
49	chr6:4609400-4613800	Enhancers	Skeletal Muscle Female	skeletal muscle
50	chr6:4609600-4613600	Enhancers	Skeletal Muscle Male	skeletal muscle

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