Variant report

Variant	rs10013329
Chromosome Location	chr4:56762267-56762268
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10008254	1.00[JPT][hapmap]
rs10024279	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10027961	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12640617	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12640685	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1374515	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17086086	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17086122	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17086160	0.89[ASN][1000 genomes]
rs2702323	1.00[CHB][hapmap]
rs2702331	1.00[JPT][hapmap]
rs2702344	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2702348	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28416783	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28892935	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6817951	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6856461	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs719007	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7674801	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7675164	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9312666	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2755990	chr4:56317136-57143037	Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
2	nsv10496	chr4:56336946-56841137	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
3	nsv1005845	chr4:56522075-56980357	Active TSS Bivalent Enhancer Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	esv3406311	chr4:56580578-56840877	ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
5	nsv427681	chr4:56651921-56908209	Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
6	nsv879024	chr4:56742205-56786589	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	nsv879025	chr4:56742205-56808607	Enhancers Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:56720400-56764600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr4:56721600-56774600	Weak transcription	Fetal Heart	heart
3	chr4:56733200-56763000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr4:56733600-56763000	Weak transcription	Stomach Mucosa	stomach
5	chr4:56733800-56772200	Weak transcription	Hela-S3	cervix
6	chr4:56733800-56772800	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr4:56734400-56773000	Strong transcription	Primary monocytes fromperipheralblood	blood
8	chr4:56734600-56773400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr4:56735000-56768000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr4:56736000-56762400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr4:56737000-56774800	Weak transcription	Psoas Muscle	Psoas
12	chr4:56737600-56763400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr4:56738000-56771400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr4:56745800-56772800	Weak transcription	Small Intestine	intestine
15	chr4:56747800-56772800	Weak transcription	NHEK	skin
16	chr4:56748000-56763400	Weak transcription	Brain Angular Gyrus	brain
17	chr4:56748000-56763800	Weak transcription	Esophagus	oesophagus
18	chr4:56748000-56770000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr4:56748000-56772000	Weak transcription	NHLF	lung
20	chr4:56748000-56773200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
21	chr4:56748200-56773400	Weak transcription	Gastric	stomach
22	chr4:56748400-56762600	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr4:56748400-56765400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr4:56748400-56770200	Weak transcription	HepG2	liver
25	chr4:56748600-56763600	Weak transcription	Brain Cingulate Gyrus	brain
26	chr4:56748600-56763800	Weak transcription	Aorta	Aorta
27	chr4:56748600-56765800	Weak transcription	Lung	lung
28	chr4:56748600-56766000	Weak transcription	Ovary	ovary
29	chr4:56748600-56767200	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr4:56748600-56768600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr4:56748600-56773000	Weak transcription	Right Ventricle	heart
32	chr4:56748600-56773200	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr4:56748600-56773400	Weak transcription	Colonic Mucosa	Colon
34	chr4:56748600-56776800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr4:56751000-56770200	Weak transcription	Brain Hippocampus Middle	brain
36	chr4:56751400-56776200	Weak transcription	A549	lung
37	chr4:56753800-56767400	Strong transcription	HSMM	muscle
38	chr4:56754800-56765200	Strong transcription	Rectal Mucosa Donor 29	rectum
39	chr4:56754800-56769600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr4:56754800-56772800	Strong transcription	Placenta	Placenta
41	chr4:56755000-56770800	Strong transcription	Primary T cells fromperipheralblood	blood
42	chr4:56755800-56772000	Strong transcription	Rectal Mucosa Donor 31	rectum
43	chr4:56755800-56772200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr4:56756000-56764000	Strong transcription	Duodenum Mucosa	Duodenum
45	chr4:56756000-56764400	Strong transcription	Fetal Intestine Large	intestine
46	chr4:56756000-56765200	Strong transcription	Fetal Thymus	thymus
47	chr4:56756000-56767600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
48	chr4:56756000-56769200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr4:56756000-56773200	Strong transcription	Primary neutrophils fromperipheralblood	blood
50	chr4:56756600-56764200	Weak transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links