Variant report

Variant	rs9625440
Chromosome Location	chr22:28643603-28643604
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10154425	0.80[CEU][hapmap]
rs10212036	1.00[AFR][1000 genomes]
rs10212083	0.91[CEU][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10483151	1.00[CEU][hapmap]
rs12166253	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12167735	0.90[AMR][1000 genomes]
rs12168054	0.80[CEU][hapmap]
rs12168652	0.90[AMR][1000 genomes]
rs12168708	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12168851	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12170637	0.83[CEU][hapmap]
rs12170953	0.80[CEU][hapmap]
rs1297607	0.83[CEU][hapmap]
rs134194	0.91[CEU][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs134197	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs134488	0.83[CEU][hapmap]
rs134506	0.83[CEU][hapmap]
rs134514	0.83[CEU][hapmap]
rs134524	0.83[CEU][hapmap]
rs134547	0.83[CEU][hapmap]
rs138642	0.80[AMR][1000 genomes]
rs16986398	0.83[CEU][hapmap]
rs17407024	1.00[AFR][1000 genomes]
rs17484337	0.80[CEU][hapmap]
rs17487463	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2345717	0.84[AMR][1000 genomes]
rs55846737	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs56391942	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73437900	0.82[EUR][1000 genomes]
rs738200	0.91[CEU][hapmap]
rs73882709	0.84[AMR][1000 genomes]
rs9620778	0.91[CEU][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9620779	0.91[CEU][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9625390	0.80[CEU][hapmap]
rs9625391	0.80[CEU][hapmap]
rs9625408	0.80[CEU][hapmap]
rs9625415	1.00[AFR][1000 genomes]
rs9625430	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs9625433	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9625437	0.91[CEU][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9625438	0.83[CEU][hapmap]
rs9625441	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9625447	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9625467	0.91[CEU][hapmap]
rs9625475	0.91[CEU][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	nsv1062877	chr22:28163507-28866350	Weak transcription Enhancers Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv459866	chr22:28540492-28753833	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv588879	chr22:28540492-28753833	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:28618400-28662200	Weak transcription	Pancreas	Pancrea
2	chr22:28635600-28650800	Weak transcription	Dnd41	blood
3	chr22:28639400-28643800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr22:28639400-28644000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr22:28639400-28644200	Enhancers	Osteobl	bone
6	chr22:28639400-28645800	Enhancers	Fetal Heart	heart
7	chr22:28639600-28644000	Enhancers	NH-A	brain
8	chr22:28640800-28644000	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
9	chr22:28640800-28644200	Enhancers	Skeletal Muscle Female	skeletal muscle
10	chr22:28640800-28646200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr22:28641000-28643800	Weak transcription	Right Atrium	heart
12	chr22:28641000-28644000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr22:28641000-28645600	Weak transcription	Aorta	Aorta
14	chr22:28641000-28646800	Weak transcription	Small Intestine	intestine
15	chr22:28641000-28655800	Weak transcription	Fetal Kidney	kidney
16	chr22:28641200-28648400	Weak transcription	Fetal Brain Male	brain
17	chr22:28641400-28644000	Enhancers	NHLF	lung
18	chr22:28641400-28644200	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr22:28641600-28645000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr22:28641800-28644200	Weak transcription	Stomach Mucosa	stomach
21	chr22:28641800-28644600	Weak transcription	Duodenum Mucosa	Duodenum
22	chr22:28641800-28644600	Weak transcription	Fetal Intestine Small	intestine
23	chr22:28642000-28648200	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr22:28642400-28644400	Enhancers	Fetal Stomach	stomach
25	chr22:28642400-28646800	Enhancers	K562	blood
26	chr22:28642400-28649400	Weak transcription	Fetal Intestine Large	intestine
27	chr22:28642600-28644400	Enhancers	Psoas Muscle	Psoas
28	chr22:28642600-28644600	Weak transcription	A549	lung
29	chr22:28642800-28644600	Enhancers	Brain Substantia Nigra	brain
30	chr22:28642800-28645000	Enhancers	Brain Anterior Caudate	brain
31	chr22:28642800-28647400	Weak transcription	HepG2	liver
32	chr22:28643000-28644000	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
33	chr22:28643000-28644200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr22:28643000-28644200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr22:28643000-28644200	Enhancers	Left Ventricle	heart
36	chr22:28643000-28644400	Enhancers	Fetal Muscle Leg	muscle
37	chr22:28643000-28644400	Enhancers	Gastric	stomach
38	chr22:28643000-28645200	Enhancers	Brain Hippocampus Middle	brain
39	chr22:28643200-28643800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr22:28643200-28644000	Enhancers	Brain Cingulate Gyrus	brain
41	chr22:28643200-28644200	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
42	chr22:28643200-28644400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
43	chr22:28643200-28644400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr22:28643200-28644400	Enhancers	Fetal Lung	lung
45	chr22:28643200-28644400	Enhancers	Right Ventricle	heart
46	chr22:28643200-28644600	Enhancers	Brain Angular Gyrus	brain
47	chr22:28643200-28644800	Enhancers	Brain Inferior Temporal Lobe	brain
48	chr22:28643200-28645200	Weak transcription	HSMM	muscle
49	chr22:28643200-28646200	Weak transcription	Primary T cells from cord blood	blood
50	chr22:28643400-28643800	Bivalent Enhancer	ES-WA7 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links