Variant report

Variant	rs10502414
Chromosome Location	chr18:12802416-12802417
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10502415	1.00[CEU][hapmap];0.82[YRI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1065630	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs16939859	1.00[CEU][hapmap];0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17597893	1.00[CEU][hapmap];0.93[GIH][hapmap];0.82[LWK][hapmap];0.86[MEX][hapmap];0.94[TSI][hapmap];0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17598047	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs17656120	1.00[CEU][hapmap];1.00[GIH][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17656142	1.00[CEU][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17657106	0.90[CEU][hapmap];0.87[EUR][1000 genomes]
rs2155734	1.00[CHD][hapmap]
rs2847288	0.90[CEU][hapmap]
rs45458596	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs45506596	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs45510799	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs45518232	0.97[EUR][1000 genomes]
rs45518540	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs45575332	0.97[EUR][1000 genomes]
rs45602843	0.87[EUR][1000 genomes]
rs45626137	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs57450722	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs57528860	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs59368414	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs59698881	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs60617398	0.97[EUR][1000 genomes]
rs73402502	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73404411	0.98[EUR][1000 genomes]
rs73404414	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73404420	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73404421	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73404424	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73404453	0.88[EUR][1000 genomes]
rs73414061	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs8084006	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs8085163	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs8088256	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs8092305	1.00[CEU][hapmap];0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs973767	0.94[TSI][hapmap];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1063125	chr18:12046892-12918251	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	130 gene(s)	inside rSNPs	diseases
2	esv3528039	chr18:12396582-12851293	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
3	esv3528041	chr18:12396641-12851245	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
4	nsv1062014	chr18:12687210-13183383	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
5	nsv543655	chr18:12687210-13183383	Flanking Bivalent TSS/Enh Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
6	nsv1064273	chr18:12697601-12828251	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
7	nsv1064844	chr18:12748045-12953235	Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	68 gene(s)	inside rSNPs	diseases
8	nsv543656	chr18:12748045-12953235	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	68 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:12767400-12815800	Weak transcription	Gastric	stomach
2	chr18:12776800-12819800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr18:12777800-12838200	Weak transcription	Colonic Mucosa	Colon
4	chr18:12782000-12811200	Weak transcription	Right Ventricle	heart
5	chr18:12784600-12809000	Weak transcription	Rectal Smooth Muscle	rectum
6	chr18:12785000-12803600	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr18:12787400-12808800	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr18:12787600-12815800	Weak transcription	Pancreas	Pancrea
9	chr18:12789000-12802600	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr18:12789000-12821400	Weak transcription	Small Intestine	intestine
11	chr18:12789200-12814200	Weak transcription	Fetal Kidney	kidney
12	chr18:12789600-12808800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr18:12789800-12809000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr18:12789800-12809000	Weak transcription	Stomach Smooth Muscle	stomach
15	chr18:12790200-12828000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr18:12790400-12809000	Weak transcription	HSMM	muscle
17	chr18:12790400-12813600	Weak transcription	A549	lung
18	chr18:12790400-12814000	Weak transcription	Osteobl	bone
19	chr18:12790400-12815800	Weak transcription	K562	blood
20	chr18:12790600-12820000	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr18:12791200-12815800	Weak transcription	Brain Germinal Matrix	brain
22	chr18:12791200-12819600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr18:12791400-12819600	Weak transcription	Brain Cingulate Gyrus	brain
24	chr18:12791400-12837000	Weak transcription	NHDF-Ad	bronchial
25	chr18:12791600-12802800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
26	chr18:12791600-12828000	Weak transcription	HUVEC	blood vessel
27	chr18:12791800-12803000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr18:12791800-12821600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr18:12792200-12815800	Weak transcription	NH-A	brain
30	chr18:12792800-12802600	Weak transcription	Fetal Brain Male	brain
31	chr18:12792800-12802800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
32	chr18:12792800-12815800	Weak transcription	Brain Angular Gyrus	brain
33	chr18:12792800-12819600	Weak transcription	NHLF	lung
34	chr18:12793000-12811400	Strong transcription	Fetal Thymus	thymus
35	chr18:12794400-12806400	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr18:12794600-12802600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
37	chr18:12794600-12803000	Weak transcription	Hela-S3	cervix
38	chr18:12794600-12809000	Weak transcription	HSMMtube	muscle
39	chr18:12794600-12815800	Weak transcription	H1 Cell Line	embryonic stem cell
40	chr18:12794800-12809000	Weak transcription	Aorta	Aorta
41	chr18:12795000-12808800	Weak transcription	Spleen	Spleen
42	chr18:12795200-12815800	Weak transcription	Brain Anterior Caudate	brain
43	chr18:12796200-12804200	Strong transcription	Dnd41	blood
44	chr18:12796800-12803200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
45	chr18:12797200-12804200	Strong transcription	Liver	Liver
46	chr18:12797400-12802600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr18:12797400-12802800	Strong transcription	Primary B cells from peripheral blood	blood
48	chr18:12797800-12802600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
49	chr18:12797800-12819800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
50	chr18:12798000-12806400	Weak transcription	Fetal Brain Female	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links