Variant report

Variant	rs12573055
Chromosome Location	chr10:61656003-61656004
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:61620903..61623071-chr10:61654123..61657104,2	MCF-7	breast:
2	chr10:61655581..61657205-chr10:61658249..61660092,2	K562	blood:
3	chr10:61654182..61656949-chr10:61658544..61661969,6	MCF-7	breast:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10509114	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1171833	0.95[CEU][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11817261	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11819256	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1183347	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12571632	0.82[CHB][hapmap]
rs12572828	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1624715	0.90[CEU][hapmap]
rs1664254	0.81[CEU][hapmap]
rs1664258	0.95[CEU][hapmap]
rs1664260	0.95[CEU][hapmap]
rs1664262	0.95[CEU][hapmap]
rs1664276	0.85[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs1664278	0.86[EUR][1000 genomes]
rs1664279	0.86[EUR][1000 genomes]
rs1664280	0.86[EUR][1000 genomes]
rs1664281	0.86[EUR][1000 genomes]
rs1684902	0.95[CEU][hapmap]
rs1684904	0.86[EUR][1000 genomes]
rs1684916	0.85[EUR][1000 genomes]
rs17201105	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs17202345	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17202600	1.00[CHB][hapmap]
rs17790289	0.82[CHB][hapmap]
rs17790901	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs17791132	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs17791436	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs17791484	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs17793021	1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1972950	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2271561	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2440906	0.95[CEU][hapmap]
rs2440910	0.89[CEU][hapmap]
rs2440916	0.86[EUR][1000 genomes]
rs2440918	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs2450462	0.85[EUR][1000 genomes]
rs2450463	0.85[EUR][1000 genomes]
rs2450468	0.95[CEU][hapmap]
rs2456712	0.81[CEU][hapmap]
rs3763743	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs3763745	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3793866	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4948249	1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs4948367	0.82[CHB][hapmap]
rs4948368	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs56221953	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61845881	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs61845882	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs61845883	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs61845885	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7478076	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs895243	0.95[CEU][hapmap]

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	esv1795420	chr10:61637271-61669227	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
2	esv1800316	chr10:61639599-61700473	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:61641600-61664200	Weak transcription	A549	lung
2	chr10:61643000-61659400	Weak transcription	Hela-S3	cervix
3	chr10:61645800-61659400	Weak transcription	Fetal Brain Male	brain
4	chr10:61648600-61657600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr10:61649800-61664200	Weak transcription	Placenta	Placenta
6	chr10:61650000-61659600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr10:61650000-61659800	Weak transcription	Thymus	Thymus
8	chr10:61650200-61658000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr10:61650200-61659400	Weak transcription	Fetal Thymus	thymus
10	chr10:61650200-61664000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr10:61650200-61664200	Weak transcription	Fetal Muscle Trunk	muscle
12	chr10:61650400-61659600	Weak transcription	Dnd41	blood
13	chr10:61650800-61656200	Enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr10:61651000-61656400	Enhancers	Brain Hippocampus Middle	brain
15	chr10:61651000-61656800	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr10:61651200-61656200	Enhancers	Left Ventricle	heart
17	chr10:61651200-61656200	Enhancers	Pancreas	Pancrea
18	chr10:61651200-61656200	Enhancers	Sigmoid Colon	Sigmoid Colon
19	chr10:61651200-61656200	Enhancers	Skeletal Muscle Female	skeletal muscle
20	chr10:61651200-61656200	Enhancers	Small Intestine	intestine
21	chr10:61651200-61656400	Enhancers	Brain Anterior Caudate	brain
22	chr10:61651200-61656400	Enhancers	Brain Substantia Nigra	brain
23	chr10:61651200-61656600	Enhancers	NHEK	skin
24	chr10:61651200-61662000	Enhancers	Stomach Mucosa	stomach
25	chr10:61651200-61663400	Enhancers	Colon Smooth Muscle	Colon
26	chr10:61651400-61656400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr10:61651400-61664000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr10:61651600-61656200	Enhancers	Esophagus	oesophagus
29	chr10:61651600-61657800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
30	chr10:61651800-61656200	Enhancers	Skeletal Muscle Male	skeletal muscle
31	chr10:61651800-61662000	Enhancers	Rectal Smooth Muscle	rectum
32	chr10:61652000-61659200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr10:61653000-61656200	Enhancers	Gastric	stomach
34	chr10:61653000-61656400	Enhancers	Brain Angular Gyrus	brain
35	chr10:61653200-61656200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr10:61653200-61656200	Enhancers	Placenta Amnion	Placenta Amnion
37	chr10:61653200-61656200	Enhancers	HMEC	breast
38	chr10:61653200-61657000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr10:61653200-61657600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr10:61653200-61658000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr10:61653200-61658200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
42	chr10:61653200-61658200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr10:61653400-61656800	Enhancers	Rectal Mucosa Donor 29	rectum
44	chr10:61653400-61657600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr10:61653400-61660000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
46	chr10:61653400-61660600	Enhancers	Fetal Intestine Small	intestine
47	chr10:61653400-61661800	Enhancers	Duodenum Smooth Muscle	Duodenum
48	chr10:61653400-61663800	Enhancers	Fetal Intestine Large	intestine
49	chr10:61653600-61656200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr10:61653600-61656200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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