Variant report

Variant	rs11182898
Chromosome Location	chr12:45587219-45587220
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 97 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs1025090	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs10459293	0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10459294	0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10459295	1.00[JPT][hapmap]
rs10492284	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs10785556	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10785569	0.80[JPT][hapmap]
rs10880755	0.89[CEU][hapmap];0.90[EUR][1000 genomes]
rs10880756	0.90[EUR][1000 genomes]
rs10880757	1.00[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10880758	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10880760	0.82[AMR][1000 genomes]
rs10880761	0.87[AMR][1000 genomes]
rs10880765	0.83[CHB][hapmap];0.93[JPT][hapmap]
rs10880766	1.00[JPT][hapmap]
rs10880768	1.00[JPT][hapmap]
rs10880775	0.81[JPT][hapmap]
rs11182899	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11182903	0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11182904	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11182905	0.80[CEU][hapmap]
rs11182912	0.93[ASN][1000 genomes]
rs11182913	0.82[AMR][1000 genomes]
rs11182916	0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11182917	0.91[ASN][1000 genomes]
rs11182919	0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs11182921	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11182923	0.89[ASN][1000 genomes]
rs11182927	0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11182931	0.90[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11182935	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs11182936	0.82[AMR][1000 genomes]
rs11182940	1.00[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11182941	0.83[ASN][1000 genomes]
rs11182942	0.85[ASN][1000 genomes]
rs11182943	0.87[ASN][1000 genomes]
rs11182947	0.88[ASN][1000 genomes]
rs11182953	0.80[ASN][1000 genomes]
rs11182954	0.84[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs11182955	0.84[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs11182957	1.00[JPT][hapmap]
rs11182961	1.00[JPT][hapmap]
rs11182965	1.00[JPT][hapmap]
rs11182981	1.00[JPT][hapmap]
rs11182983	0.81[JPT][hapmap]
rs11182986	0.80[JPT][hapmap]
rs11182988	0.80[JPT][hapmap]
rs11182989	0.81[JPT][hapmap]
rs11182990	0.81[JPT][hapmap]
rs11561532	0.89[ASN][1000 genomes]
rs11610233	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11611509	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11612203	0.91[ASN][1000 genomes]
rs11612233	0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11614082	1.00[JPT][hapmap]
rs11614089	0.94[JPT][hapmap]
rs11615850	0.91[ASN][1000 genomes]
rs12226944	0.89[ASN][1000 genomes]
rs12227678	0.80[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs12228733	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12231753	0.80[CEU][hapmap]
rs12299174	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12320437	0.89[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12322087	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12814332	0.86[ASN][1000 genomes]
rs12815115	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12815334	0.80[ASN][1000 genomes]
rs12815723	0.80[ASN][1000 genomes]
rs12822746	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12828052	1.00[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs13378014	0.80[JPT][hapmap]
rs17095551	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs17095557	0.90[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1896024	0.88[EUR][1000 genomes]
rs1903934	0.86[EUR][1000 genomes]
rs2408184	0.82[AMR][1000 genomes]
rs2408185	0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs34024171	0.91[ASN][1000 genomes]
rs35054776	0.90[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs35588430	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3759077	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs3759081	0.91[ASN][1000 genomes]
rs3759082	0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs3782131	0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs57560057	0.80[ASN][1000 genomes]
rs57797434	0.92[ASN][1000 genomes]
rs61923804	1.00[EUR][1000 genomes]
rs61923810	0.92[ASN][1000 genomes]
rs61923825	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs61923830	0.91[ASN][1000 genomes]
rs7135988	0.89[CEU][hapmap];0.90[EUR][1000 genomes]
rs7138983	0.90[AMR][1000 genomes]
rs7954282	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7956033	0.90[EUR][1000 genomes]
rs7971900	0.89[CEU][hapmap];0.90[EUR][1000 genomes]
rs929903	0.90[EUR][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	nsv1050923	chr12:45581310-45808289	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:45570000-45593200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr12:45571000-45594600	Weak transcription	Pancreas	Pancrea
3	chr12:45573400-45594600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr12:45573600-45593600	Weak transcription	Fetal Thymus	thymus
5	chr12:45578600-45594000	Weak transcription	Thymus	Thymus
6	chr12:45578600-45594600	Weak transcription	Psoas Muscle	Psoas
7	chr12:45579400-45599200	Weak transcription	Primary B cells from cord blood	blood
8	chr12:45580200-45593800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr12:45582200-45591200	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr12:45582400-45593600	Weak transcription	Primary T cells from cord blood	blood
11	chr12:45584600-45587800	Enhancers	HepG2	liver
12	chr12:45584800-45594400	Weak transcription	Aorta	Aorta
13	chr12:45585200-45593800	Weak transcription	Small Intestine	intestine
14	chr12:45585800-45587400	Enhancers	Primary hematopoietic stem cells short term culture	blood
15	chr12:45585800-45588000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr12:45586000-45588400	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr12:45586200-45587400	Enhancers	Dnd41	blood
18	chr12:45586400-45587400	Enhancers	Fetal Intestine Large	intestine
19	chr12:45586600-45594600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr12:45586600-45602400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr12:45586800-45588000	Enhancers	A549	lung
22	chr12:45586800-45592200	Weak transcription	Primary monocytes fromperipheralblood	blood
23	chr12:45586800-45592200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr12:45586800-45592200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr12:45586800-45592200	Weak transcription	Monocytes-CD14+_RO01746	blood
26	chr12:45586800-45593800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr12:45587000-45593000	Weak transcription	Primary hematopoietic stem cells	blood
28	chr12:45587200-45587400	Enhancers	H1 Cell Line	embryonic stem cell
29	chr12:45587200-45588400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr12:45587200-45594600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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