Variant report

Variant	rs3010018
Chromosome Location	chr1:212223364-212223365
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:212222561..212225557-chr1:212458329..212459830,2	K562	blood:
2	chr1:212190110..212192373-chr1:212222037..212223610,2	K562	blood:
3	chr1:212222083..212223732-chr1:212224055..212226163,2	K562	blood:

Variant related genes	Relation type
ENSG00000066027	Chromatin interaction
ENSG00000220749	Chromatin interaction

Extended variants
information (count: 85 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs1017979	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs10863933	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10863934	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10863938	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10863940	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2788128	1.00[AMR][1000 genomes]
rs2788129	1.00[AMR][1000 genomes]
rs2788130	1.00[CEU][hapmap];0.91[YRI][hapmap];1.00[AMR][1000 genomes]
rs2788131	1.00[CEU][hapmap];1.00[AMR][1000 genomes]
rs2788134	1.00[AMR][1000 genomes]
rs2788135	1.00[CEU][hapmap];0.91[YRI][hapmap]
rs2788136	1.00[CEU][hapmap];0.84[YRI][hapmap];1.00[AMR][1000 genomes]
rs2788137	1.00[CEU][hapmap];0.91[YRI][hapmap];1.00[AMR][1000 genomes]
rs2788141	1.00[CEU][hapmap]
rs2788142	1.00[CEU][hapmap]
rs2808380	0.91[YRI][hapmap]
rs2808383	1.00[CEU][hapmap]
rs2808384	1.00[CEU][hapmap];0.92[YRI][hapmap];1.00[AMR][1000 genomes]
rs2808387	1.00[AMR][1000 genomes]
rs2808390	1.00[CEU][hapmap];0.92[YRI][hapmap];1.00[AMR][1000 genomes]
rs2970573	1.00[AMR][1000 genomes]
rs2970574	1.00[CEU][hapmap];0.92[YRI][hapmap];1.00[AMR][1000 genomes]
rs2970575	1.00[AMR][1000 genomes]
rs2970576	1.00[CEU][hapmap]
rs2970585	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2970586	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2970588	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2970590	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2970591	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2970594	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2970596	1.00[EUR][1000 genomes]
rs2970597	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2970598	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2970600	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2970602	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2993524	1.00[CEU][hapmap];0.89[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2993525	1.00[CEU][hapmap];0.84[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2993526	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2993527	1.00[CEU][hapmap];0.89[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2993530	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2993532	0.82[EUR][1000 genomes]
rs2993536	1.00[CEU][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2993537	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2993540	1.00[CEU][hapmap];0.91[YRI][hapmap];1.00[AMR][1000 genomes]
rs2993542	1.00[AMR][1000 genomes]
rs2993543	1.00[CEU][hapmap]
rs2993546	1.00[CEU][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2993548	1.00[AMR][1000 genomes]
rs2993549	1.00[CEU][hapmap];0.84[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3009983	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3009986	1.00[CEU][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3009990	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3009992	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3009993	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3009994	1.00[CEU][hapmap];0.91[YRI][hapmap];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3009995	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3009996	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3009998	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3009999	1.00[CEU][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3010000	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3010001	1.00[CEU][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3010005	1.00[CEU][hapmap];1.00[YRI][hapmap];0.82[EUR][1000 genomes]
rs3010008	1.00[CEU][hapmap];0.91[YRI][hapmap];1.00[AMR][1000 genomes]
rs3010014	1.00[CEU][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3010015	1.00[CEU][hapmap];0.91[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3010017	1.00[CEU][hapmap];0.92[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3010019	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3010020	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3010021	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3010022	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4309042	0.82[EUR][1000 genomes]
rs4397712	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs4951437	1.00[CEU][hapmap];0.84[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4951565	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6540717	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6540718	1.00[AMR][1000 genomes]
rs6656826	1.00[CEU][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6658972	1.00[CEU][hapmap];0.92[YRI][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6660399	1.00[AMR][1000 genomes]
rs6672030	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6683980	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6704044	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7532954	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7551276	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[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	nsv999738	chr1:212218618-212513690	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:212209600-212226600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr1:212209600-212253000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr1:212210400-212223600	Weak transcription	HSMM	muscle
4	chr1:212210400-212227400	Weak transcription	Fetal Muscle Trunk	muscle
5	chr1:212210400-212228800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr1:212210400-212228800	Weak transcription	Duodenum Mucosa	Duodenum
7	chr1:212210400-212228800	Weak transcription	Fetal Intestine Large	intestine
8	chr1:212210600-212227400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr1:212210600-212229200	Weak transcription	Fetal Brain Female	brain
10	chr1:212210800-212241200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr1:212211000-212227200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr1:212211400-212224000	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr1:212211400-212226600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr1:212211400-212229200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr1:212211600-212227400	Weak transcription	Fetal Lung	lung
16	chr1:212211800-212223600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr1:212212000-212228400	Weak transcription	Brain Germinal Matrix	brain
18	chr1:212212000-212229200	Weak transcription	Fetal Kidney	kidney
19	chr1:212213000-212227000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr1:212214400-212227200	Weak transcription	NHEK	skin
21	chr1:212214400-212228000	Weak transcription	NH-A	brain
22	chr1:212214400-212228200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
23	chr1:212214400-212278000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr1:212214600-212223400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr1:212214600-212225000	Weak transcription	Primary T cells from cord blood	blood
26	chr1:212214600-212225400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr1:212214600-212227400	Weak transcription	Thymus	Thymus
28	chr1:212214600-212228400	Weak transcription	NHLF	lung
29	chr1:212214600-212228800	Strong transcription	Hela-S3	cervix
30	chr1:212215000-212226200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr1:212215600-212229200	Strong transcription	HUES64 Cell Line	embryonic stem cell
32	chr1:212215600-212233000	Strong transcription	HUES6 Cell Line	embryonic stem cell
33	chr1:212215800-212228800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr1:212215800-212229000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
35	chr1:212216000-212229200	Strong transcription	Fetal Thymus	thymus
36	chr1:212216200-212233200	Strong transcription	HUES48 Cell Line	embryonic stem cell
37	chr1:212216400-212225400	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr1:212216400-212229400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr1:212216600-212224200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr1:212216600-212227600	Weak transcription	Osteobl	bone
41	chr1:212216800-212229000	Strong transcription	H1 Cell Line	embryonic stem cell
42	chr1:212217000-212232800	Strong transcription	Dnd41	blood
43	chr1:212217400-212228600	Weak transcription	Fetal Intestine Small	intestine
44	chr1:212218000-212231000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr1:212218000-212231800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
46	chr1:212218200-212224400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr1:212218200-212225800	Strong transcription	K562	blood
48	chr1:212218600-212228600	Weak transcription	Primary monocytes fromperipheralblood	blood
49	chr1:212219400-212226200	Weak transcription	NHDF-Ad	bronchial
50	chr1:212219400-212226600	Weak transcription	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links