Variant report

Variant	rs28359962
Chromosome Location	chr6:29562588-29562589
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:29562445..29564608-chr6:29570995..29573500,2	K562	blood:
2	chr6:29562440..29564140-chr6:29565910..29567515,2	K562	blood:

Variant related genes	Relation type
ENSG00000204681	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs28359961	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28359968	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28359990	0.81[EUR][1000 genomes]
rs3025640	0.81[EUR][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:42 , 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	chr6:29561400-29562800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr6:29561400-29563000	Enhancers	HUES6 Cell Line	embryonic stem cell
7	chr6:29561400-29567200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr6:29561400-29567600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr6:29561600-29562600	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr6:29561600-29562600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr6:29561600-29563400	Enhancers	iPS-15b Cell Line	embryonic stem cell
12	chr6:29561600-29567600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr6:29561600-29567600	Weak transcription	Fetal Stomach	stomach
14	chr6:29561600-29569000	Weak transcription	Spleen	Spleen
15	chr6:29561600-29569400	Weak transcription	Stomach Smooth Muscle	stomach
16	chr6:29561600-29569600	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr6:29561600-29569800	Weak transcription	Fetal Muscle Trunk	muscle
18	chr6:29561600-29570000	Weak transcription	Brain Hippocampus Middle	brain
19	chr6:29561600-29570000	Weak transcription	Lung	lung
20	chr6:29561600-29570000	Weak transcription	Rectal Smooth Muscle	rectum
21	chr6:29561600-29570200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr6:29561600-29570600	Weak transcription	Right Ventricle	heart
23	chr6:29561600-29571600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr6:29561800-29564200	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr6:29561800-29566600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr6:29561800-29569400	Weak transcription	Fetal Lung	lung
27	chr6:29561800-29570200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr6:29561800-29571600	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr6:29561800-29573200	Weak transcription	HSMMtube	muscle
30	chr6:29562000-29566200	Weak transcription	Ovary	ovary
31	chr6:29562000-29566800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr6:29562000-29567800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr6:29562000-29568400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr6:29562000-29569200	Weak transcription	Brain Anterior Caudate	brain
35	chr6:29562000-29569400	Weak transcription	Fetal Muscle Leg	muscle
36	chr6:29562000-29569800	Weak transcription	K562	blood
37	chr6:29562000-29570600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr6:29562000-29571800	Weak transcription	Left Ventricle	heart
39	chr6:29562000-29572600	Weak transcription	Fetal Heart	heart
40	chr6:29562200-29562600	Weak transcription	HUES64 Cell Line	embryonic stem cell
41	chr6:29562400-29562800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr6:29562400-29563000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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