Variant report

Variant	rs10798434
Chromosome Location	chr1:175954031-175954032
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10218714	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10436856	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10494495	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10494498	0.80[CEU][hapmap]
rs10753112	0.96[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10753117	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10753118	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10798422	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10798425	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10798428	0.89[YRI][hapmap]
rs10798442	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[JPT][hapmap];0.89[YRI][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10798444	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10798445	0.86[JPT][hapmap]
rs10798446	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.88[YRI][hapmap]
rs10913116	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10913117	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10913118	0.91[JPT][hapmap]
rs10913120	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10913124	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10913131	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10913132	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10913135	1.00[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap];0.88[YRI][hapmap]
rs10913137	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.89[YRI][hapmap]
rs10913143	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.89[YRI][hapmap]
rs10913144	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.85[YRI][hapmap]
rs10913147	0.96[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap]
rs11810706	0.95[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs12023976	0.85[EUR][1000 genomes]
rs12029090	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12030638	0.80[CEU][hapmap]
rs12033847	0.96[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.84[YRI][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12033976	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12039741	0.80[CEU][hapmap]
rs12049077	0.96[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap]
rs12066926	0.84[EUR][1000 genomes]
rs12138008	0.81[JPT][hapmap]
rs12404596	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[YRI][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12723724	0.91[JPT][hapmap]
rs12729524	0.81[JPT][hapmap]
rs12735810	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16849486	0.91[JPT][hapmap]
rs17351562	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17354120	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.84[YRI][hapmap]
rs2481628	0.86[JPT][hapmap]
rs2481630	0.86[JPT][hapmap]
rs2481631	0.86[JPT][hapmap]
rs2481633	0.87[JPT][hapmap]
rs2481655	0.82[JPT][hapmap]
rs2487144	0.86[JPT][hapmap]
rs2502823	0.82[JPT][hapmap]
rs2502831	0.86[JPT][hapmap]
rs2502834	0.88[YRI][hapmap]
rs2502835	0.89[YRI][hapmap]
rs2502845	0.90[JPT][hapmap]
rs34973462	0.81[ASN][1000 genomes]
rs35846379	0.82[EUR][1000 genomes]
rs4409605	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs520661	0.86[JPT][hapmap]
rs617078	0.86[JPT][hapmap]
rs6665385	0.86[JPT][hapmap]
rs6678628	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs6678812	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs6680839	0.88[ASN][1000 genomes]
rs6687043	0.80[YRI][hapmap]
rs6688898	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6693299	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6697860	0.86[JPT][hapmap]
rs6703511	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs704829	0.86[JPT][hapmap]
rs7515914	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7517503	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.88[YRI][hapmap]
rs7527463	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7534058	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7534948	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7549160	0.82[JPT][hapmap]
rs791743	0.86[JPT][hapmap]
rs791751	0.86[JPT][hapmap]
rs791753	0.86[JPT][hapmap]
rs9425447	0.86[JPT][hapmap]

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	esv1823794	chr1:175869554-176311778	Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv872561	chr1:175949646-176092167	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv872562	chr1:175949646-176141866	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv872563	chr1:175949646-176184625	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:175904200-175956200	Weak transcription	Psoas Muscle	Psoas
2	chr1:175906400-175962600	Weak transcription	NH-A	brain
3	chr1:175908000-175959400	Weak transcription	NHEK	skin
4	chr1:175946000-175996000	Weak transcription	HMEC	breast
5	chr1:175948200-175957400	Weak transcription	Brain Substantia Nigra	brain
6	chr1:175948200-175961400	Weak transcription	NHLF	lung
7	chr1:175949200-175958600	Strong transcription	Primary neutrophils fromperipheralblood	blood
8	chr1:175949200-175958600	Strong transcription	Primary T cells fromperipheralblood	blood
9	chr1:175949400-175957000	Weak transcription	Osteobl	bone
10	chr1:175949600-175954800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr1:175949800-175954800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr1:175950000-175954200	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr1:175950000-175961200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr1:175950200-175955400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr1:175950200-175956400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr1:175950400-175954800	ZNF genes & repeats	Primary B cells from cord blood	blood
17	chr1:175950400-175955000	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
18	chr1:175950400-175955000	ZNF genes & repeats	GM12878-XiMat	blood
19	chr1:175950600-175954800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
20	chr1:175951000-175955000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr1:175951200-175957600	Strong transcription	HSMM	muscle
22	chr1:175951400-175954200	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
23	chr1:175951400-175954800	ZNF genes & repeats	Primary hematopoietic stem cells	blood
24	chr1:175951600-175954600	Strong transcription	Muscle Satellite Cultured Cells	--
25	chr1:175951600-175956200	Strong transcription	Hela-S3	cervix
26	chr1:175951600-175958600	Weak transcription	Fetal Heart	heart
27	chr1:175951800-175954200	ZNF genes & repeats	Primary B cells from peripheral blood	blood
28	chr1:175951800-175954600	ZNF genes & repeats	A549	lung
29	chr1:175951800-175954800	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr1:175951800-175954800	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr1:175951800-175954800	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
32	chr1:175951800-175955000	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
33	chr1:175951800-175956000	Strong transcription	Skeletal Muscle Female	skeletal muscle
34	chr1:175952000-175954200	Strong transcription	Stomach Smooth Muscle	stomach
35	chr1:175952000-175955000	Strong transcription	Primary T helper naive cells from peripheral blood	blood
36	chr1:175952000-175958000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
37	chr1:175952200-175954200	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
38	chr1:175952200-175954400	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
39	chr1:175952400-175954200	Weak transcription	HSMMtube	muscle
40	chr1:175952400-175954800	ZNF genes & repeats	Thymus	Thymus
41	chr1:175952400-175955000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr1:175952600-175954200	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr1:175952600-175958800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr1:175952800-175954200	Strong transcription	Brain Inferior Temporal Lobe	brain
45	chr1:175952800-175954800	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
46	chr1:175952800-175954800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr1:175952800-175954800	Strong transcription	Brain Anterior Caudate	brain
48	chr1:175953000-175954200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr1:175953000-175954800	ZNF genes & repeats	Primary T helper memory cells from peripheral blood 2	blood
50	chr1:175953000-175958000	Strong 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