Variant report

Variant	rs7798124
Chromosome Location	chr7:15055616-15055617
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:14757081..14758001-chr7:15054605..15056087,5	MCF-7	breast:
2	chr7:15046835..15047773-chr7:15055487..15056275,2	MCF-7	breast:

Extended variants
information (count: 64 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10228066	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10228456	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10228561	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10228796	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10238161	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10238625	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10244051	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10249299	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10258074	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10264063	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10264723	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10266209	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10267273	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10487796	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10807778	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10950546	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10950548	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10950549	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10950550	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12538003	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12538043	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12540947	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12699673	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13220985	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1558317	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1558318	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1974619	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1974620	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1990379	0.80[AMR][1000 genomes]
rs2191346	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2191348	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2191349	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2215381	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2215382	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2215383	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2358158	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2358159	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4719430	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4719433	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4721400	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6461153	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6947830	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6967891	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6976086	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7781710	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7784091	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7798360	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758104	chr7:14896877-15299786	Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	esv2759512	chr7:14896877-15299786	ZNF genes & repeats Bivalent Enhancer Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1032569	chr7:14905287-15597069	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1021172	chr7:14944318-15548794	Active TSS ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv538743	chr7:14944318-15548794	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv887719	chr7:14995522-15072029	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv464389	chr7:15008138-15098004	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv606285	chr7:15008138-15098004	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv887720	chr7:15008714-15072029	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv517876	chr7:15010824-15198589	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
11	nsv830910	chr7:15011028-15212309	Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
12	nsv887721	chr7:15025332-15163610	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
13	nsv1017308	chr7:15047280-15074656	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
14	esv2761127	chr7:15051210-15152813	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
15	nsv1029986	chr7:15051210-15152813	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
16	nsv522499	chr7:15051754-15148454	Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
17	nsv1018434	chr7:15054190-15144078	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7798124	MEOX2	cis	parietal	SCAN

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:15055000-15055800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr7:15055000-15055800	Active TSS	iPS-15b Cell Line	embryonic stem cell
3	chr7:15055000-15055800	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
4	chr7:15055000-15055800	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
5	chr7:15055000-15055800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr7:15055000-15055800	Enhancers	Breast Myoepithelial Primary Cells	Breast
7	chr7:15055000-15055800	Enhancers	Fetal Heart	heart
8	chr7:15055000-15055800	Active TSS	Fetal Kidney	kidney
9	chr7:15055000-15055800	Enhancers	Placenta Amnion	Placenta Amnion
10	chr7:15055000-15056200	Active TSS	Pancreatic Islets	Pancreatic Islet
11	chr7:15055200-15055800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr7:15055200-15055800	Active TSS	H9 Cell Line	embryonic stem cell
13	chr7:15055200-15055800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr7:15055200-15055800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr7:15055200-15055800	Flanking Active TSS	Liver	Liver
16	chr7:15055200-15055800	Active TSS	Brain Angular Gyrus	brain
17	chr7:15055200-15055800	Active TSS	Brain Cingulate Gyrus	brain
18	chr7:15055200-15055800	Flanking Active TSS	Brain Germinal Matrix	brain
19	chr7:15055200-15055800	Active TSS	Brain Inferior Temporal Lobe	brain
20	chr7:15055200-15055800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
21	chr7:15055200-15055800	Flanking Active TSS	Fetal Brain Female	brain
22	chr7:15055200-15055800	Enhancers	Fetal Muscle Leg	muscle
23	chr7:15055200-15055800	Enhancers	Fetal Stomach	stomach
24	chr7:15055200-15055800	Enhancers	Ovary	ovary
25	chr7:15055200-15055800	Enhancers	Psoas Muscle	Psoas
26	chr7:15055200-15055800	Enhancers	Stomach Mucosa	stomach
27	chr7:15055200-15055800	Flanking Active TSS	Hela-S3	cervix
28	chr7:15055200-15055800	Flanking Active TSS	HMEC	breast
29	chr7:15055200-15055800	Flanking Active TSS	NHEK	skin
30	chr7:15055200-15055800	Enhancers	Osteobl	bone
31	chr7:15055200-15056000	Active TSS	HUES6 Cell Line	embryonic stem cell
32	chr7:15055200-15056600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr7:15055200-15056600	Enhancers	Colon Smooth Muscle	Colon
34	chr7:15055200-15056600	Enhancers	Rectal Smooth Muscle	rectum
35	chr7:15055200-15057000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr7:15055400-15055800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
37	chr7:15055400-15055800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr7:15055400-15055800	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
39	chr7:15055400-15055800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr7:15055400-15055800	Active TSS	Brain Anterior Caudate	brain
41	chr7:15055400-15055800	Enhancers	Duodenum Mucosa	Duodenum
42	chr7:15055400-15055800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
43	chr7:15055400-15055800	Flanking Active TSS	Fetal Intestine Large	intestine
44	chr7:15055400-15055800	Active TSS	Left Ventricle	heart
45	chr7:15055400-15055800	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
46	chr7:15055400-15055800	Active TSS	Right Ventricle	heart
47	chr7:15055400-15055800	Flanking Active TSS	HUVEC	blood vessel
48	chr7:15055400-15055800	Active TSS	NH-A	brain
49	chr7:15055400-15056000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr7:15055400-15056000	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain

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