Variant report

Variant	rs62406582
Chromosome Location	chr6:29563964-29563965
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:29562445..29564608-chr6:29570995..29573500,2	K562	blood:
2	chr6:29556939..29558806-chr6:29563836..29566834,2	K562	blood:
3	chr6:29562440..29564140-chr6:29565910..29567515,2	K562	blood:

Variant related genes	Relation type
ENSG00000204681	Chromatin interaction

Extended variants
information (count: 35 )
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]
rs62406583	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62406584	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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:3 , 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	nsv5239	chr6:29527407-29566446	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

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	chr6:29560000-29564000	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr6:29561200-29567800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr6:29561400-29567200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr6:29561400-29567600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr6:29561600-29567600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr6:29561600-29567600	Weak transcription	Fetal Stomach	stomach
9	chr6:29561600-29569000	Weak transcription	Spleen	Spleen
10	chr6:29561600-29569400	Weak transcription	Stomach Smooth Muscle	stomach
11	chr6:29561600-29569600	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr6:29561600-29569800	Weak transcription	Fetal Muscle Trunk	muscle
13	chr6:29561600-29570000	Weak transcription	Brain Hippocampus Middle	brain
14	chr6:29561600-29570000	Weak transcription	Lung	lung
15	chr6:29561600-29570000	Weak transcription	Rectal Smooth Muscle	rectum
16	chr6:29561600-29570200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr6:29561600-29570600	Weak transcription	Right Ventricle	heart
18	chr6:29561600-29571600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr6:29561800-29564200	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr6:29561800-29566600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr6:29561800-29569400	Weak transcription	Fetal Lung	lung
22	chr6:29561800-29570200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr6:29561800-29571600	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr6:29561800-29573200	Weak transcription	HSMMtube	muscle
25	chr6:29562000-29566200	Weak transcription	Ovary	ovary
26	chr6:29562000-29566800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr6:29562000-29567800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr6:29562000-29568400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr6:29562000-29569200	Weak transcription	Brain Anterior Caudate	brain
30	chr6:29562000-29569400	Weak transcription	Fetal Muscle Leg	muscle
31	chr6:29562000-29569800	Weak transcription	K562	blood
32	chr6:29562000-29570600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr6:29562000-29571800	Weak transcription	Left Ventricle	heart
34	chr6:29562000-29572600	Weak transcription	Fetal Heart	heart
35	chr6:29563000-29566000	Weak transcription	HUES6 Cell Line	embryonic stem cell
36	chr6:29563000-29566800	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr6:29563000-29567400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr6:29563000-29569000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr6:29563000-29569400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
40	chr6:29563200-29564000	Weak transcription	HUES64 Cell Line	embryonic stem cell
41	chr6:29563200-29566800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
42	chr6:29563400-29569000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr6:29563800-29564600	Enhancers	iPS-20b Cell Line	embryonic stem cell
44	chr6:29563800-29564800	Enhancers	iPS-15b Cell Line	embryonic stem cell
45	chr6:29563800-29566800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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