Variant report

Variant	rs945123
Chromosome Location	chr10:96199921-96199922
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	chr10:96198485..96200699-chr10:96202037..96204075,2	MCF-7	breast:
2	chr10:96162530..96165019-chr10:96199067..96201077,2	MCF-7	breast:

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs1079504	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10882452	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10882454	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10882460	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10882463	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10882469	0.80[EUR][1000 genomes]
rs10882470	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10882471	0.81[EUR][1000 genomes]
rs11187937	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11187939	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11187944	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11187948	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11187952	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11187958	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11187966	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11187972	0.85[EUR][1000 genomes]
rs11187973	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11187980	0.86[EUR][1000 genomes]
rs11187996	0.81[EUR][1000 genomes]
rs11188005	0.88[EUR][1000 genomes]
rs11188017	0.81[EUR][1000 genomes]
rs11188026	0.81[EUR][1000 genomes]
rs11188030	0.81[EUR][1000 genomes]
rs11527881	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11592354	0.81[EUR][1000 genomes]
rs12219906	0.80[EUR][1000 genomes]
rs12221475	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12572040	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs12573638	0.91[EUR][1000 genomes]
rs12762574	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1749352	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1749355	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1749356	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1889485	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1889486	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1889487	0.82[EUR][1000 genomes]
rs1969815	0.80[EUR][1000 genomes]
rs1977290	0.85[EUR][1000 genomes]
rs1980741	0.86[EUR][1000 genomes]
rs2012670	0.81[EUR][1000 genomes]
rs2095380	0.87[EUR][1000 genomes]
rs2244241	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2265362	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2265364	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2860760	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2860821	0.80[EUR][1000 genomes]
rs2901764	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2901765	0.84[EUR][1000 genomes]
rs34814196	0.80[EUR][1000 genomes]
rs35774063	0.88[EUR][1000 genomes]
rs4316436	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4351744	0.87[EUR][1000 genomes]
rs4421688	0.81[EUR][1000 genomes]
rs4611135	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs479664	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4917505	0.83[EUR][1000 genomes]
rs4918333	0.86[EUR][1000 genomes]
rs4918401	0.81[EUR][1000 genomes]
rs4918403	0.83[EUR][1000 genomes]
rs493088	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs517784	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs522111	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs541704	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs542540	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs556055	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56020662	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs576517	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs581165	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6583943	0.83[EUR][1000 genomes]
rs6583944	0.81[EUR][1000 genomes]
rs6583945	0.81[EUR][1000 genomes]
rs692872	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7073639	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7078236	0.86[EUR][1000 genomes]
rs7083898	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7086462	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7087472	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7089094	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7393251	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7898330	0.81[EUR][1000 genomes]
rs7913343	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7921721	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs912466	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9420641	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs955694	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9633699	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2761616	chr10:95966768-96303701	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv831946	chr10:96055190-96226438	Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv497859	chr10:96058024-97027747	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	esv1819509	chr10:96064300-96361776	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96188400-96213600	Weak transcription	Stomach Mucosa	stomach
2	chr10:96190800-96234600	Weak transcription	Osteobl	bone
3	chr10:96192000-96211400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr10:96198400-96202800	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr10:96198400-96218200	Weak transcription	Aorta	Aorta
6	chr10:96199200-96211200	Weak transcription	Monocytes-CD14+_RO01746	blood
7	chr10:96199200-96215400	Weak transcription	Fetal Stomach	stomach
8	chr10:96199400-96200000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr10:96199400-96202200	Weak transcription	Brain Cingulate Gyrus	brain
10	chr10:96199400-96202200	Weak transcription	Brain Hippocampus Middle	brain
11	chr10:96199400-96202400	Weak transcription	HSMM	muscle
12	chr10:96199400-96202800	Weak transcription	Brain Angular Gyrus	brain
13	chr10:96199400-96202800	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr10:96199400-96202800	Weak transcription	Brain Substantia Nigra	brain
15	chr10:96199400-96202800	Weak transcription	Fetal Muscle Trunk	muscle
16	chr10:96199400-96202800	Weak transcription	Ovary	ovary
17	chr10:96199400-96203000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr10:96199400-96203400	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr10:96199400-96204000	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr10:96199400-96204000	Weak transcription	Stomach Smooth Muscle	stomach
21	chr10:96199400-96207000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr10:96199400-96211200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr10:96199400-96211400	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr10:96199400-96211400	Weak transcription	Psoas Muscle	Psoas
25	chr10:96199400-96212000	Weak transcription	Adipose Nuclei	Adipose
26	chr10:96199400-96215200	Weak transcription	Placenta	Placenta
27	chr10:96199400-96219600	Weak transcription	Pancreas	Pancrea
28	chr10:96199600-96200000	Weak transcription	Left Ventricle	heart
29	chr10:96199600-96201200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr10:96199600-96202800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr10:96199800-96200200	Enhancers	Lung	lung
32	chr10:96199800-96203200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links