Variant report

Variant	rs242584
Chromosome Location	chr14:56735596-56735597
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:56735282..56738108-chr14:56741731..56743329,2	K562	blood:

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1188693	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1188694	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1201403	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12883776	0.89[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1756053	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.95[TSI][hapmap];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs242580	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs242581	0.86[YRI][hapmap]
rs242595	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs385141	0.93[YRI][hapmap]
rs7161274	0.89[YRI][hapmap]
rs8009841	0.89[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533129	chr14:56568535-56819234	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	esv1844788	chr14:56594420-56771207	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1044886	chr14:56689682-56834648	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv542104	chr14:56689682-56834648	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs242584	PTGER2	cis	cerebellum	SCAN

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:56716600-56737800	Weak transcription	Aorta	Aorta
2	chr14:56717800-56737800	Weak transcription	Thymus	Thymus
3	chr14:56717800-56749600	Weak transcription	Fetal Thymus	thymus
4	chr14:56717800-56765400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr14:56718400-56755800	Weak transcription	Ovary	ovary
6	chr14:56718800-56751400	Weak transcription	Primary B cells from cord blood	blood
7	chr14:56724600-56755200	Weak transcription	Primary hematopoietic stem cells	blood
8	chr14:56725400-56746800	Weak transcription	Dnd41	blood
9	chr14:56725600-56742200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr14:56729200-56740600	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr14:56731200-56747800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr14:56731400-56748000	Weak transcription	Primary neutrophils fromperipheralblood	blood
13	chr14:56731800-56737800	Weak transcription	Lung	lung
14	chr14:56733200-56744000	Weak transcription	Gastric	stomach
15	chr14:56733800-56746400	Weak transcription	Primary monocytes fromperipheralblood	blood
16	chr14:56734000-56736200	Enhancers	Duodenum Mucosa	Duodenum
17	chr14:56734000-56750000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr14:56734400-56735600	Enhancers	A549	lung
19	chr14:56734400-56736000	Enhancers	Osteobl	bone
20	chr14:56734600-56735600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr14:56734600-56735600	Enhancers	Hela-S3	cervix
22	chr14:56734600-56735800	Enhancers	NHLF	lung
23	chr14:56734600-56736200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr14:56734800-56735800	Enhancers	NH-A	brain
25	chr14:56734800-56738400	Weak transcription	Brain Substantia Nigra	brain
26	chr14:56734800-56740800	Weak transcription	Esophagus	oesophagus
27	chr14:56735000-56735600	Enhancers	iPS-15b Cell Line	embryonic stem cell
28	chr14:56735000-56736200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr14:56735000-56738400	Weak transcription	Left Ventricle	heart
30	chr14:56735200-56735600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
31	chr14:56735200-56735600	Weak transcription	HUVEC	blood vessel
32	chr14:56735200-56735800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
33	chr14:56735200-56735800	Strong transcription	Primary T cells from cord blood	blood
34	chr14:56735200-56736000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr14:56735200-56736000	Strong transcription	Monocytes-CD14+_RO01746	blood
36	chr14:56735200-56736200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr14:56735200-56736200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr14:56735200-56755200	Weak transcription	Adipose Nuclei	Adipose
39	chr14:56735400-56735600	Enhancers	Spleen	Spleen
40	chr14:56735400-56735800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr14:56735400-56735800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr14:56735400-56735800	Enhancers	Fetal Intestine Small	intestine
43	chr14:56735400-56736000	Enhancers	Pancreas	Pancrea
44	chr14:56735400-56741200	Weak transcription	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links