Variant report

Variant	rs2046416
Chromosome Location	chr15:77085283-77085284
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10152388	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1706848	1.00[CEU][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1711018	0.83[ASW][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1711019	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2404739	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs279992	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs280011	0.91[YRI][hapmap]
rs280015	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs280023	0.91[YRI][hapmap]
rs280026	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2956877	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3099136	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3099147	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3102708	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3106376	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4886841	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6495225	1.00[CEU][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7178950	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7183961	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[LWK][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8032258	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs925492	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv542439	chr15:76762161-77196336	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
2	esv3440794	chr15:76764595-77571114	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv904400	chr15:76772062-77085283	Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1053924	chr15:76803849-77089079	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
5	nsv904401	chr15:76816015-77085283	Strong transcription Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
6	esv2830013	chr15:76863023-77176158	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
7	nsv904406	chr15:76869929-77085283	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
8	nsv904407	chr15:76869929-77121196	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
9	nsv904408	chr15:76884127-77085283	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv1046137	chr15:76892097-77196336	ZNF genes & repeats Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
11	nsv542442	chr15:76892097-77196336	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
12	nsv904411	chr15:76893186-77085283	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
13	nsv904412	chr15:76910031-77085283	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
14	nsv457206	chr15:76971456-77121196	Strong transcription Weak transcription ZNF genes & repeats Active TSS Enhancers Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
15	nsv570110	chr15:76971456-77121196	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
16	esv3367577	chr15:77015618-77442634	Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77057000-77092000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr15:77057000-77097200	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr15:77057200-77098400	Weak transcription	Brain Cingulate Gyrus	brain
4	chr15:77057800-77098200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr15:77058000-77085600	Weak transcription	Thymus	Thymus
6	chr15:77058000-77100200	Weak transcription	Fetal Brain Male	brain
7	chr15:77058000-77106000	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr15:77058200-77085400	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr15:77067400-77086000	Weak transcription	Brain Angular Gyrus	brain
10	chr15:77069200-77085600	Weak transcription	Fetal Muscle Trunk	muscle
11	chr15:77069600-77085800	Weak transcription	Brain Germinal Matrix	brain
12	chr15:77070000-77093600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr15:77070000-77097200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr15:77070200-77085600	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr15:77073000-77085400	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr15:77073000-77091800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr15:77073000-77093800	Weak transcription	Gastric	stomach
18	chr15:77073000-77101000	Weak transcription	Lung	lung
19	chr15:77073000-77101400	Weak transcription	Right Ventricle	heart
20	chr15:77073000-77109200	Weak transcription	Spleen	Spleen
21	chr15:77073000-77125000	Weak transcription	Pancreas	Pancrea
22	chr15:77073200-77085600	Weak transcription	Fetal Stomach	stomach
23	chr15:77073200-77091800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr15:77075800-77092000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr15:77076600-77098000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr15:77077000-77089000	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr15:77078200-77103000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
28	chr15:77078600-77087600	Weak transcription	Fetal Intestine Small	intestine
29	chr15:77078600-77091800	Weak transcription	Esophagus	oesophagus
30	chr15:77079600-77097800	Weak transcription	HSMMtube	muscle
31	chr15:77080400-77092000	Weak transcription	HMEC	breast
32	chr15:77082400-77086400	Strong transcription	Primary B cells from cord blood	blood
33	chr15:77082600-77085400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr15:77082600-77087600	Strong transcription	Monocytes-CD14+_RO01746	blood
35	chr15:77082600-77096400	Weak transcription	Colonic Mucosa	Colon
36	chr15:77082800-77087800	Strong transcription	Liver	Liver
37	chr15:77083000-77085800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr15:77083000-77087800	Strong transcription	Dnd41	blood
39	chr15:77083000-77088600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
40	chr15:77083200-77087000	Strong transcription	Stomach Smooth Muscle	stomach
41	chr15:77083200-77087600	Strong transcription	Fetal Thymus	thymus
42	chr15:77083200-77087800	Strong transcription	Primary T cells fromperipheralblood	blood
43	chr15:77083200-77087800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr15:77083200-77088200	Strong transcription	Fetal Intestine Large	intestine
45	chr15:77083400-77085800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
46	chr15:77083400-77086200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr15:77083400-77086400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
48	chr15:77083400-77086400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr15:77083400-77087000	Strong transcription	Primary hematopoietic stem cells	blood
50	chr15:77083400-77087400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links