Variant report

Variant	rs62406584
Chromosome Location	chr6:29568082-29568083
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:29564159..29568485-chr6:29574849..29577852,4	K562	blood:
2	chr6:29566358..29568865-chr6:29570413..29572313,3	K562	blood:
3	chr6:29567658..29569553-chr6:29570192..29572225,2	K562	blood:
4	chr6:29565212..29568130-chr6:29573289..29574813,2	K562	blood:
5	chr6:29564780..29575712-chr6:29592511..29597522,14	K562	blood:
6	chr6:29566782..29572750-chr6:29592808..29598864,8	K562	blood:
7	chr6:29564159..29568485-chr6:29574849..29577852,3	K562	blood:

Variant related genes	Relation type
ENSG00000204681	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs16895101	0.86[ASN][1000 genomes]
rs2057010	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2058325	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2058326	0.91[ASN][1000 genomes]
rs28359971	0.93[ASN][1000 genomes]
rs28359972	0.95[ASN][1000 genomes]
rs28749524	0.95[ASN][1000 genomes]
rs29219	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs29256	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29266	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3025628	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3025642	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs362515	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs362517	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55701059	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55871431	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55888673	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55971964	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56020557	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56045105	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56106029	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56142919	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56155438	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56393713	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62392941	0.95[ASN][1000 genomes]
rs62392942	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62392943	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62392944	0.92[EUR][1000 genomes]
rs62406580	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62406582	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62406583	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72831507	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[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	esv2758039	chr6:29469101-29672665	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	esv2759411	chr6:29469101-29672665	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv528285	chr6:29566842-29588146	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv462671	chr6:29566842-29588146	Strong transcription Weak transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv601229	chr6:29566842-29588146	Strong transcription Weak transcription Genic enhancers Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:93 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29546200-29569400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:29559400-29568400	Weak transcription	HMEC	breast
3	chr6:29561600-29569000	Weak transcription	Spleen	Spleen
4	chr6:29561600-29569400	Weak transcription	Stomach Smooth Muscle	stomach
5	chr6:29561600-29569600	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr6:29561600-29569800	Weak transcription	Fetal Muscle Trunk	muscle
7	chr6:29561600-29570000	Weak transcription	Brain Hippocampus Middle	brain
8	chr6:29561600-29570000	Weak transcription	Lung	lung
9	chr6:29561600-29570000	Weak transcription	Rectal Smooth Muscle	rectum
10	chr6:29561600-29570200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr6:29561600-29570600	Weak transcription	Right Ventricle	heart
12	chr6:29561600-29571600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr6:29561800-29569400	Weak transcription	Fetal Lung	lung
14	chr6:29561800-29570200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr6:29561800-29571600	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr6:29561800-29573200	Weak transcription	HSMMtube	muscle
17	chr6:29562000-29568400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr6:29562000-29569200	Weak transcription	Brain Anterior Caudate	brain
19	chr6:29562000-29569400	Weak transcription	Fetal Muscle Leg	muscle
20	chr6:29562000-29569800	Weak transcription	K562	blood
21	chr6:29562000-29570600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr6:29562000-29571800	Weak transcription	Left Ventricle	heart
23	chr6:29562000-29572600	Weak transcription	Fetal Heart	heart
24	chr6:29563000-29569000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr6:29563000-29569400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr6:29563400-29569000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr6:29564000-29569200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr6:29564000-29569600	Weak transcription	Fetal Brain Male	brain
29	chr6:29564400-29569600	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr6:29564800-29569200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr6:29565200-29568800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr6:29565200-29570200	Weak transcription	Fetal Kidney	kidney
33	chr6:29565400-29569400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr6:29565600-29570400	Weak transcription	NHDF-Ad	bronchial
35	chr6:29565600-29572200	Weak transcription	Primary T helper cells PMA-I stimulated	--
36	chr6:29565800-29568400	Weak transcription	NHEK	skin
37	chr6:29565800-29569000	Weak transcription	Osteobl	bone
38	chr6:29565800-29569400	Weak transcription	Brain Germinal Matrix	brain
39	chr6:29565800-29569800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr6:29566000-29570000	Weak transcription	NHLF	lung
41	chr6:29566200-29568600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr6:29566400-29569000	Weak transcription	Primary B cells from peripheral blood	blood
43	chr6:29566400-29569600	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr6:29566400-29595200	Weak transcription	Right Atrium	heart
45	chr6:29566600-29570200	Weak transcription	Primary T cells fromperipheralblood	blood
46	chr6:29566600-29570200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr6:29566600-29570400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr6:29566600-29587000	Strong transcription	Primary neutrophils fromperipheralblood	blood
49	chr6:29566800-29569400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr6:29566800-29570000	Weak transcription	Monocytes-CD14+_RO01746	blood

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