Variant report

Variant	rs2942717
Chromosome Location	chr3:101653544-101653545
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1672376	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1672377	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1672379	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1672382	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1672384	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1707600	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1707610	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2925329	0.88[ASN][1000 genomes]
rs2943301	0.91[YRI][hapmap]
rs606407	0.82[ASN][1000 genomes]
rs635268	1.00[CHB][hapmap];0.82[JPT][hapmap];0.92[YRI][hapmap]
rs771572	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs796417	0.88[ASN][1000 genomes]
rs797867	0.87[ASN][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	nsv497784	chr3:101315009-102092989	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	esv3351469	chr3:101511702-101866448	Weak transcription Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv1010762	chr3:101584836-101803821	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 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	chr3:101643600-101654000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr3:101643800-101658400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:101644000-101654400	Weak transcription	Primary B cells from cord blood	blood
4	chr3:101644800-101654000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr3:101648200-101655600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr3:101648400-101654400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:101648400-101655000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr3:101648400-101655400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr3:101648400-101655600	Weak transcription	NHLF	lung
10	chr3:101648600-101654800	Weak transcription	Osteobl	bone
11	chr3:101648600-101655600	Weak transcription	Hela-S3	cervix
12	chr3:101648800-101655600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr3:101648800-101655600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr3:101651600-101655200	Weak transcription	Fetal Muscle Trunk	muscle
15	chr3:101651800-101654000	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr3:101651800-101654200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr3:101652000-101654000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr3:101652000-101654000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr3:101652000-101654200	Weak transcription	Primary T cells from cord blood	blood
20	chr3:101652000-101654200	Weak transcription	NHDF-Ad	bronchial
21	chr3:101652000-101654400	Weak transcription	GM12878-XiMat	blood
22	chr3:101652000-101655600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr3:101652200-101654400	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr3:101652200-101654800	Weak transcription	HSMMtube	muscle
25	chr3:101652400-101654000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr3:101652400-101654000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr3:101652400-101654000	Weak transcription	HSMM	muscle
28	chr3:101652800-101654400	Enhancers	Monocytes-CD14+_RO01746	blood
29	chr3:101653000-101655600	Enhancers	Primary neutrophils fromperipheralblood	blood
30	chr3:101653200-101654200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr3:101653200-101659200	Enhancers	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links