Variant report

Variant	rs9312669
Chromosome Location	chr4:56853209-56853210
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12498836	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12506140	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12512313	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13129724	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13135276	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13138432	0.83[CEU][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];0.95[MEX][hapmap];0.90[TSI][hapmap];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2593086	0.84[JPT][hapmap]
rs34065759	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34558195	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35032869	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35282347	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs35869805	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs35921148	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4864566	1.00[CEU][hapmap];0.88[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];0.95[MEX][hapmap];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4865044	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4865047	0.83[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.87[GIH][hapmap];0.84[JPT][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56209204	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6856844	0.83[CEU][hapmap];0.87[GIH][hapmap];0.89[JPT][hapmap];0.95[MEX][hapmap];0.90[TSI][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs71601608	0.87[AMR][1000 genomes]
rs71601613	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7436262	0.86[JPT][hapmap]

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	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	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
3	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

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:56815800-56875000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr4:56816200-56873400	Weak transcription	Pancreas	Pancrea
3	chr4:56816200-56884200	Weak transcription	Rectal Smooth Muscle	rectum
4	chr4:56816200-56887800	Weak transcription	Gastric	stomach
5	chr4:56816400-56866000	Weak transcription	Spleen	Spleen
6	chr4:56816400-56890800	Weak transcription	Colon Smooth Muscle	Colon
7	chr4:56816600-56865800	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr4:56816600-56890600	Weak transcription	Brain Hippocampus Middle	brain
9	chr4:56816600-56896400	Weak transcription	Fetal Heart	heart
10	chr4:56816800-56865800	Weak transcription	Small Intestine	intestine
11	chr4:56816800-56869800	Weak transcription	HepG2	liver
12	chr4:56817400-56885400	Weak transcription	NHDF-Ad	bronchial
13	chr4:56817800-56854600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr4:56818200-56853800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr4:56819000-56897400	Weak transcription	HSMMtube	muscle
16	chr4:56819200-56859600	Weak transcription	Fetal Kidney	kidney
17	chr4:56819200-56890600	Weak transcription	NHLF	lung
18	chr4:56820600-56892400	Weak transcription	Hela-S3	cervix
19	chr4:56822200-56873600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr4:56822400-56865800	Weak transcription	Psoas Muscle	Psoas
21	chr4:56823600-56893800	Weak transcription	HMEC	breast
22	chr4:56825200-56865800	Weak transcription	Aorta	Aorta
23	chr4:56825600-56870000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
24	chr4:56827800-56854200	Strong transcription	Primary monocytes fromperipheralblood	blood
25	chr4:56828200-56854600	Strong transcription	Monocytes-CD14+_RO01746	blood
26	chr4:56828200-56884200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr4:56829200-56881400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr4:56829400-56865600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr4:56829600-56890600	Weak transcription	A549	lung
30	chr4:56831800-56855200	Strong transcription	Primary T cells from cord blood	blood
31	chr4:56832400-56865800	Weak transcription	Liver	Liver
32	chr4:56832600-56854800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr4:56833000-56877200	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr4:56835400-56904800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr4:56837200-56905000	Weak transcription	Brain Substantia Nigra	brain
36	chr4:56837400-56854600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr4:56838000-56853400	Strong transcription	Primary B cells from cord blood	blood
38	chr4:56838200-56865400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr4:56839000-56853800	Strong transcription	Primary T cells fromperipheralblood	blood
40	chr4:56839800-56896600	Weak transcription	Brain Angular Gyrus	brain
41	chr4:56840000-56865800	Weak transcription	Esophagus	oesophagus
42	chr4:56840200-56855800	Weak transcription	H1 Cell Line	embryonic stem cell
43	chr4:56840200-56855800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr4:56840200-56865800	Weak transcription	Fetal Brain Female	brain
45	chr4:56840200-56878000	Weak transcription	NHEK	skin
46	chr4:56840200-56884600	Weak transcription	H9 Cell Line	embryonic stem cell
47	chr4:56840400-56855400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
48	chr4:56840600-56866600	Weak transcription	Muscle Satellite Cultured Cells	--
49	chr4:56842800-56890800	Weak transcription	Osteobl	bone
50	chr4:56843400-56853600	Strong transcription	Primary T helper cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links