Variant report

Variant	rs9425285
Chromosome Location	chr1:172291408-172291409
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:172290966..172293542-chr1:172305681..172308662,2	MCF-7	breast:
2	chr1:172290323..172292944-chr1:172297056..172298732,2	MCF-7	breast:
3	chr1:172223489..172225833-chr1:172289738..172293302,4	MCF-7	breast:
4	chr1:172291112..172293715-chr1:172326566..172328931,2	MCF-7	breast:
5	chr1:172290799..172293766-chr1:172293837..172296183,4	MCF-7	breast:
6	chr1:172063383..172065738-chr1:172289085..172291783,2	MCF-7	breast:
7	chr1:172290820..172291829-chr1:172368303..172369352,3	MCF-7	breast:
8	chr1:172253395..172255527-chr1:172290385..172292894,2	MCF-7	breast:
9	chr1:172244510..172246522-chr1:172290374..172293118,2	MCF-7	breast:

No data

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10752923	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12096225	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12097276	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2251991	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2254703	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2254720	0.91[ASN][1000 genomes]
rs2254810	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2255076	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2255460	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2255707	0.88[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2256059	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2422076	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2422077	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586390	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2586395	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586396	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586398	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586399	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586400	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586402	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586405	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586406	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586409	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586414	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586417	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586418	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586419	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586422	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586423	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586425	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586426	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2757485	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757486	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757487	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757488	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757489	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757490	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757491	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757492	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757497	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757498	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757499	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757500	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757501	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2757502	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757505	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2757506	0.88[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs61807830	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61807832	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6424867	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6677550	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6702094	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73044902	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74124018	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9425269	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9425271	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9425284	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9425544	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9425552	0.85[ASN][1000 genomes]
rs9633302	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1006542	chr1:172253765-172304690	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172272600-172291600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:172275200-172309800	Weak transcription	Left Ventricle	heart
3	chr1:172289600-172293200	Enhancers	Fetal Kidney	kidney
4	chr1:172289800-172291600	Enhancers	Sigmoid Colon	Sigmoid Colon
5	chr1:172289800-172291800	Enhancers	Fetal Lung	lung
6	chr1:172289800-172291800	Enhancers	Rectal Smooth Muscle	rectum
7	chr1:172289800-172292800	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr1:172289800-172293200	Enhancers	Ovary	ovary
9	chr1:172289800-172293400	Enhancers	Fetal Muscle Leg	muscle
10	chr1:172289800-172295200	Enhancers	Fetal Stomach	stomach
11	chr1:172290000-172291800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr1:172290000-172292400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
13	chr1:172290000-172292400	Enhancers	Brain Hippocampus Middle	brain
14	chr1:172290200-172291600	Enhancers	NHLF	lung
15	chr1:172290200-172292200	Enhancers	ES-I3 Cell Line	embryonic stem cell
16	chr1:172290200-172292800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr1:172290200-172295600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr1:172290400-172292200	Flanking Active TSS	HSMMtube	muscle
19	chr1:172290400-172292200	Flanking Active TSS	NHDF-Ad	bronchial
20	chr1:172290600-172291600	Enhancers	NH-A	brain
21	chr1:172290600-172291800	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr1:172290600-172291800	Enhancers	Stomach Mucosa	stomach
23	chr1:172290600-172292200	Enhancers	Brain Substantia Nigra	brain
24	chr1:172290600-172292400	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr1:172290600-172295400	Enhancers	Breast Myoepithelial Primary Cells	Breast
26	chr1:172290800-172291800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr1:172290800-172291800	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr1:172291000-172291600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr1:172291000-172292800	Flanking Active TSS	NHEK	skin
30	chr1:172291200-172291800	Active TSS	Right Atrium	heart
31	chr1:172291200-172292200	Flanking Active TSS	Adipose Nuclei	Adipose
32	chr1:172291200-172292200	Active TSS	A549	lung
33	chr1:172291200-172292600	Enhancers	Fetal Brain Male	brain
34	chr1:172291200-172292600	Enhancers	Fetal Brain Female	brain
35	chr1:172291200-172292600	Flanking Active TSS	Hela-S3	cervix
36	chr1:172291200-172292800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr1:172291400-172291600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr1:172291400-172291600	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
39	chr1:172291400-172291600	Enhancers	Pancreas	Pancrea
40	chr1:172291400-172291800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr1:172291400-172291800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr1:172291400-172291800	Enhancers	Brain Anterior Caudate	brain
43	chr1:172291400-172291800	Enhancers	Skeletal Muscle Female	skeletal muscle
44	chr1:172291400-172291800	Active TSS	HUVEC	blood vessel
45	chr1:172291400-172292000	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr1:172291400-172292000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr1:172291400-172292000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr1:172291400-172292200	Flanking Active TSS	Colon Smooth Muscle	Colon
49	chr1:172291400-172292200	Flanking Active TSS	HSMM	muscle
50	chr1:172291400-172292400	Active TSS	Aorta	Aorta

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