Variant report

Variant	rs2787572
Chromosome Location	chr6:101849663-101849664
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:101845046..101846938-chr6:101848275..101850484,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164418	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1338156	0.87[ASN][1000 genomes]
rs1352039	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1832411	0.87[ASN][1000 genomes]
rs1843487	0.81[EUR][1000 genomes]
rs1933356	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2518177	0.87[ASN][1000 genomes]
rs2579928	0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs2579930	0.87[ASN][1000 genomes]
rs2629983	0.85[ASN][1000 genomes]
rs2629989	0.80[ASN][1000 genomes]
rs2852499	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4103516	0.87[ASN][1000 genomes]
rs516735	0.80[ASN][1000 genomes]
rs517552	0.80[ASN][1000 genomes]
rs7771786	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1020400	chr6:101172705-101981665	Weak transcription Bivalent/Poised TSS Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv538390	chr6:101172705-101981665	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:101846400-101851600	Bivalent/Poised TSS	Brain Cingulate Gyrus	brain
2	chr6:101846600-101850200	Bivalent/Poised TSS	Brain Hippocampus Middle	brain
3	chr6:101847800-101849800	Weak transcription	Right Atrium	heart
4	chr6:101847800-101851400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
5	chr6:101848600-101851600	Active TSS	Brain Angular Gyrus	brain
6	chr6:101849000-101850000	Flanking Active TSS	Fetal Brain Female	brain
7	chr6:101849200-101849800	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
8	chr6:101849200-101849800	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
9	chr6:101849200-101849800	Flanking Bivalent TSS/Enh	Fetal Brain Male	brain
10	chr6:101849200-101851400	Active TSS	Brain Anterior Caudate	brain
11	chr6:101849400-101849800	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
12	chr6:101849400-101849800	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
13	chr6:101849400-101849800	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr6:101849400-101850400	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr6:101849400-101850400	Bivalent/Poised TSS	Fetal Adrenal Gland	Adrenal Gland
16	chr6:101849400-101850600	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
17	chr6:101849400-101851200	Active TSS	H9 Cell Line	embryonic stem cell
18	chr6:101849400-101851600	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
19	chr6:101849600-101849800	Flanking Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr6:101849600-101849800	Flanking Bivalent TSS/Enh	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr6:101849600-101849800	Flanking Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr6:101849600-101849800	Flanking Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
23	chr6:101849600-101849800	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
24	chr6:101849600-101849800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr6:101849600-101849800	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr6:101849600-101849800	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr6:101849600-101849800	Bivalent Enhancer	Left Ventricle	heart
28	chr6:101849600-101850000	Bivalent Enhancer	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr6:101849600-101850000	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr6:101849600-101850000	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr6:101849600-101850000	Active TSS	Brain Germinal Matrix	brain
32	chr6:101849600-101850000	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
33	chr6:101849600-101850000	Active TSS	Brain Substantia Nigra	brain
34	chr6:101849600-101850000	Flanking Active TSS	Ovary	ovary
35	chr6:101849600-101850400	Bivalent Enhancer	Fetal Muscle Leg	muscle
36	chr6:101849600-101850600	Bivalent/Poised TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr6:101849600-101850600	Bivalent/Poised TSS	Stomach Smooth Muscle	stomach
38	chr6:101849600-101850800	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr6:101849600-101850800	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
40	chr6:101849600-101851000	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr6:101849600-101851000	Bivalent/Poised TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr6:101849600-101851000	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
43	chr6:101849600-101851000	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr6:101849600-101851000	Bivalent/Poised TSS	NH-A	brain
45	chr6:101849600-101851200	Active TSS	Pancreatic Islets	Pancreatic Islet
46	chr6:101849600-101851400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr6:101849600-101851600	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr6:101849600-101851800	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
49	chr6:101849600-101852000	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell

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