Variant report

Variant	rs60648801
Chromosome Location	chr10:28591343-28591344
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:28570371..28575406-chr10:28590076..28593528,7	MCF-7	breast:
2	chr10:28590710..28592646-chr10:28598868..28601462,3	MCF-7	breast:
3	chr10:28548955..28550637-chr10:28589374..28591919,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000150054	Chromatin interaction
ENSG00000222374	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11006990	0.86[AFR][1000 genomes]
rs11006994	0.86[AFR][1000 genomes]
rs11006997	0.86[AFR][1000 genomes]
rs2368306	0.86[AFR][1000 genomes]
rs35016093	0.86[AFR][1000 genomes]
rs3847385	1.00[AMR][1000 genomes]
rs3936498	1.00[AMR][1000 genomes]
rs4598572	0.86[AFR][1000 genomes]
rs57137891	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59663023	1.00[AFR][1000 genomes];1.00[AMR][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	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1041555	chr10:28419399-29304934	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv1037863	chr10:28419399-29378871	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	nsv540521	chr10:28419399-29378871	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28589800-28592800	Active TSS	Stomach Smooth Muscle	stomach
2	chr10:28590400-28591400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
3	chr10:28590400-28591400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
4	chr10:28590400-28591400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr10:28590400-28592800	Active TSS	Aorta	Aorta
6	chr10:28590600-28591400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
7	chr10:28590600-28591400	Bivalent/Poised TSS	Fetal Lung	lung
8	chr10:28590600-28592600	Active TSS	Brain Anterior Caudate	brain
9	chr10:28590600-28592600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
10	chr10:28590600-28592600	Active TSS	Colonic Mucosa	Colon
11	chr10:28590800-28591400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
12	chr10:28590800-28591400	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
13	chr10:28590800-28591400	Flanking Active TSS	HMEC	breast
14	chr10:28590800-28591400	Flanking Active TSS	NH-A	brain
15	chr10:28590800-28591600	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
16	chr10:28590800-28591800	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
17	chr10:28590800-28592400	Active TSS	Brain Angular Gyrus	brain
18	chr10:28590800-28592600	Active TSS	HUES48 Cell Line	embryonic stem cell
19	chr10:28590800-28592600	Active TSS	iPS-15b Cell Line	embryonic stem cell
20	chr10:28590800-28592600	Active TSS	Brain Germinal Matrix	brain
21	chr10:28590800-28592600	Active TSS	Right Ventricle	heart
22	chr10:28590800-28592800	Active TSS	ES-I3 Cell Line	embryonic stem cell
23	chr10:28590800-28592800	Active TSS	Fetal Stomach	stomach
24	chr10:28590800-28592800	Active TSS	Right Atrium	heart
25	chr10:28590800-28593000	Active TSS	Rectal Mucosa Donor 29	rectum
26	chr10:28590800-28593200	Active TSS	H1 Cell Line	embryonic stem cell
27	chr10:28591000-28591400	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr10:28591000-28591400	Bivalent/Poised TSS	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr10:28591000-28591400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr10:28591000-28591400	Flanking Active TSS	Primary B cells from cord blood	blood
31	chr10:28591000-28591400	Flanking Active TSS	Primary B cells from peripheral blood	blood
32	chr10:28591000-28591400	Flanking Active TSS	Primary T cells fromperipheralblood	blood
33	chr10:28591000-28591400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
34	chr10:28591000-28591400	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
35	chr10:28591000-28591400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
36	chr10:28591000-28591400	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
37	chr10:28591000-28591400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
38	chr10:28591000-28591400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr10:28591000-28591400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr10:28591000-28591400	Flanking Active TSS	Adipose Nuclei	Adipose
41	chr10:28591000-28591400	Flanking Active TSS	Liver	Liver
42	chr10:28591000-28591400	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
43	chr10:28591000-28591400	Active TSS	Fetal Heart	heart
44	chr10:28591000-28591400	Bivalent/Poised TSS	Fetal Kidney	kidney
45	chr10:28591000-28591400	Flanking Bivalent TSS/Enh	Osteobl	bone
46	chr10:28591000-28592200	Active TSS	HepG2	liver
47	chr10:28591000-28592400	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr10:28591000-28592400	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr10:28591000-28592400	Active TSS	Brain Hippocampus Middle	brain
50	chr10:28591000-28592400	Active TSS	Brain Inferior Temporal Lobe	brain

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