Variant report

Variant	rs12565852
Chromosome Location	chr1:169369330-169369331
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:169363269..169365266-chr1:169367448..169370534,3	K562	blood:
2	chr1:169353969..169356305-chr1:169367810..169369890,2	K562	blood:

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10047168	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10800418	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10800430	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.91[EUR][1000 genomes]
rs10800436	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10800443	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10800445	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919097	0.85[EUR][1000 genomes]
rs10919098	0.85[EUR][1000 genomes]
rs10919100	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.85[EUR][1000 genomes]
rs10919104	0.85[EUR][1000 genomes]
rs10919110	0.82[EUR][1000 genomes]
rs10919111	0.85[EUR][1000 genomes]
rs10919131	0.82[EUR][1000 genomes]
rs10919151	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919152	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919156	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10919157	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10919159	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11487548	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11805562	0.91[EUR][1000 genomes]
rs11806445	0.82[EUR][1000 genomes]
rs11807896	0.88[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs11810815	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12058325	0.91[EUR][1000 genomes]
rs12059944	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[JPT][hapmap];0.93[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12061069	0.88[EUR][1000 genomes]
rs12061080	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12061405	0.85[EUR][1000 genomes]
rs12062884	0.82[EUR][1000 genomes]
rs12063056	0.88[EUR][1000 genomes]
rs12063719	0.94[EUR][1000 genomes]
rs12063863	0.88[EUR][1000 genomes]
rs12065030	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes]
rs12067139	0.88[EUR][1000 genomes]
rs12067351	0.91[EUR][1000 genomes]
rs12070031	0.85[EUR][1000 genomes]
rs12071224	0.82[EUR][1000 genomes]
rs12071630	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12073439	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[EUR][1000 genomes]
rs12074966	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12076519	0.91[EUR][1000 genomes]
rs12080100	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs12081030	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12081562	0.85[EUR][1000 genomes]
rs12088672	0.94[EUR][1000 genomes]
rs12089602	0.82[EUR][1000 genomes]
rs12091133	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12091844	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12092506	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12092952	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12094791	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12097260	0.88[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs12097682	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12561922	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs12740226	0.82[EUR][1000 genomes]
rs2275300	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2280257	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2901092	1.00[YRI][hapmap]
rs35144581	0.82[EUR][1000 genomes]
rs3737683	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3753298	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.85[EUR][1000 genomes]
rs3765227	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3766064	0.85[EUR][1000 genomes]
rs3766077	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3766082	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs3766088	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes]
rs3766092	0.91[EUR][1000 genomes]
rs3820057	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.85[EUR][1000 genomes]
rs41272453	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57776592	0.88[EUR][1000 genomes]
rs60011235	0.88[EUR][1000 genomes]
rs7515326	0.88[EUR][1000 genomes]
rs7544446	0.88[EUR][1000 genomes]
rs9628661	1.00[CEU][hapmap];1.00[YRI][hapmap];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv10418	chr1:169059628-169621268	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	nsv872531	chr1:169191860-169388193	Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv831871	chr1:169320673-169486680	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169353000-169369800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr1:169354000-169370000	Weak transcription	Aorta	Aorta
3	chr1:169354800-169370600	Weak transcription	Fetal Kidney	kidney
4	chr1:169359600-169369800	Weak transcription	NHDF-Ad	bronchial
5	chr1:169360600-169372200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr1:169360800-169370600	Weak transcription	NHLF	lung
7	chr1:169360800-169395200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr1:169361400-169369400	Weak transcription	Rectal Smooth Muscle	rectum
9	chr1:169362200-169370000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr1:169362200-169370000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr1:169362200-169371200	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr1:169362400-169369800	Weak transcription	Fetal Thymus	thymus
13	chr1:169362400-169370000	Weak transcription	Brain Germinal Matrix	brain
14	chr1:169362400-169370000	Weak transcription	Fetal Brain Female	brain
15	chr1:169362600-169369600	Weak transcription	Primary T cells from cord blood	blood
16	chr1:169363400-169371200	Weak transcription	Ovary	ovary
17	chr1:169364400-169375600	Weak transcription	Brain Anterior Caudate	brain
18	chr1:169365400-169370200	Weak transcription	NH-A	brain
19	chr1:169365600-169370800	Weak transcription	Primary neutrophils fromperipheralblood	blood
20	chr1:169365600-169371000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr1:169365600-169371200	Weak transcription	Fetal Lung	lung
22	chr1:169365800-169372400	Weak transcription	HSMM	muscle
23	chr1:169366000-169369400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
24	chr1:169366000-169370400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr1:169366200-169369600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr1:169366200-169370000	Weak transcription	Monocytes-CD14+_RO01746	blood
27	chr1:169367400-169370000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr1:169367400-169370200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr1:169368200-169371000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr1:169369000-169369400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr1:169369200-169369400	ZNF genes & repeats	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links