Variant report

Variant	rs7527406
Chromosome Location	chr1:153863356-153863357
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	chr1:153854243..153856118-chr1:153863285..153864984,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11264522	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12023578	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12032520	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12033532	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12039936	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12043354	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12044455	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12045838	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12726350	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2072704	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2297895	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs33998934	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34579266	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34665499	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35170146	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4309017	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4323749	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61804837	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61804838	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61804839	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61805526	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6427298	0.81[ASN][1000 genomes]
rs6427334	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9427246	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999364	chr1:153622634-154419436	Strong transcription Genic enhancers Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	286 gene(s)	inside rSNPs	diseases
2	nsv535175	chr1:153622634-154419436	Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	286 gene(s)	inside rSNPs	diseases
3	nsv531892	chr1:153671910-153954090	Flanking Active TSS Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
4	nsv817392	chr1:153724807-153870005	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
5	nsv532551	chr1:153732039-154192279	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	233 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:153825800-153887200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr1:153830200-153863600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr1:153837000-153893000	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr1:153846200-153894200	Weak transcription	Esophagus	oesophagus
5	chr1:153846400-153871600	Weak transcription	Lung	lung
6	chr1:153853800-153864800	Weak transcription	Primary B cells from cord blood	blood
7	chr1:153853800-153892200	Weak transcription	Pancreas	Pancrea
8	chr1:153853800-153893400	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr1:153854000-153869200	Weak transcription	HepG2	liver
10	chr1:153854000-153892600	Weak transcription	Colonic Mucosa	Colon
11	chr1:153854400-153876200	Weak transcription	Spleen	Spleen
12	chr1:153854400-153892400	Weak transcription	Aorta	Aorta
13	chr1:153854600-153865200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr1:153854600-153892200	Weak transcription	HSMM	muscle
15	chr1:153854800-153871200	Weak transcription	Fetal Muscle Trunk	muscle
16	chr1:153855000-153866200	Weak transcription	Left Ventricle	heart
17	chr1:153855000-153886800	Weak transcription	Gastric	stomach
18	chr1:153855000-153886800	Weak transcription	Stomach Smooth Muscle	stomach
19	chr1:153855000-153887200	Weak transcription	Ovary	ovary
20	chr1:153855000-153891800	Weak transcription	NHEK	skin
21	chr1:153855000-153892400	Weak transcription	NHLF	lung
22	chr1:153855000-153892800	Weak transcription	NH-A	brain
23	chr1:153855200-153865200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr1:153855200-153865400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr1:153855200-153871200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr1:153855200-153871200	Weak transcription	Fetal Brain Female	brain
27	chr1:153855200-153880600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr1:153855400-153865200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr1:153855400-153870400	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr1:153855400-153871200	Weak transcription	Fetal Intestine Large	intestine
31	chr1:153855400-153876400	Weak transcription	Osteobl	bone
32	chr1:153855400-153879600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr1:153855400-153892000	Weak transcription	HMEC	breast
34	chr1:153855600-153865000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr1:153855600-153865000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr1:153855600-153865400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr1:153855600-153869800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr1:153855600-153871200	Weak transcription	HUVEC	blood vessel
39	chr1:153855600-153873600	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr1:153855600-153892200	Weak transcription	Fetal Kidney	kidney
41	chr1:153855800-153869800	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr1:153855800-153869800	Weak transcription	HUES64 Cell Line	embryonic stem cell
43	chr1:153856000-153865000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr1:153856000-153871400	Weak transcription	Brain Germinal Matrix	brain
45	chr1:153856000-153890400	Weak transcription	Brain Angular Gyrus	brain
46	chr1:153856000-153891600	Weak transcription	Rectal Smooth Muscle	rectum
47	chr1:153856400-153863800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr1:153858600-153863400	Strong transcription	Dnd41	blood
49	chr1:153859000-153873600	Strong transcription	Fetal Thymus	thymus
50	chr1:153859800-153865400	Weak transcription	Brain Hippocampus Middle	brain

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