Variant report

Variant	rs9561921
Chromosome Location	chr13:96293631-96293632
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs17235334	0.92[CHB][hapmap];0.91[CHD][hapmap];0.90[JPT][hapmap];0.85[TSI][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs3742151	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs3759446	1.00[CEU][hapmap];0.83[CHB][hapmap];0.86[CHD][hapmap];0.87[GIH][hapmap];0.84[JPT][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3848075	1.00[CEU][hapmap]
rs4536336	0.82[CEU][hapmap]
rs4773918	0.85[CEU][hapmap]
rs6492811	0.82[CEU][hapmap]
rs7321311	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9556491	0.85[CEU][hapmap]
rs9556493	0.92[CHB][hapmap];0.90[JPT][hapmap];0.86[YRI][hapmap];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9561918	0.92[CHB][hapmap];0.91[CHD][hapmap];0.90[JPT][hapmap];0.85[TSI][hapmap];0.86[YRI][hapmap];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9561919	1.00[CEU][hapmap];0.90[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9561920	0.85[CEU][hapmap];0.92[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.92[TSI][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9561922	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9561933	1.00[CEU][hapmap]
rs9561938	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv900934	chr13:96255706-96327574	Strong transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	esv3330095	chr13:96281000-96297421	Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:96251400-96294400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr13:96256400-96295200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr13:96256800-96294200	Weak transcription	Placenta	Placenta
4	chr13:96279200-96293800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
5	chr13:96279400-96293800	Weak transcription	Liver	Liver
6	chr13:96284600-96295800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr13:96285800-96293800	Weak transcription	Aorta	Aorta
8	chr13:96286600-96293800	Weak transcription	Psoas Muscle	Psoas
9	chr13:96291000-96293800	Strong transcription	A549	lung
10	chr13:96291600-96294200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr13:96291600-96295800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr13:96292000-96293800	Genic enhancers	Cortex derived primary cultured neurospheres	brain
13	chr13:96292600-96293800	Genic enhancers	HUVEC	blood vessel
14	chr13:96292600-96294000	Genic enhancers	HepG2	liver
15	chr13:96293200-96294800	Bivalent/Poised TSS	Fetal Intestine Large	intestine
16	chr13:96293400-96293800	Genic enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr13:96293400-96293800	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
18	chr13:96293400-96293800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr13:96293400-96293800	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr13:96293400-96293800	Flanking Bivalent TSS/Enh	Duodenum Mucosa	Duodenum
21	chr13:96293400-96293800	Flanking Bivalent TSS/Enh	Duodenum Smooth Muscle	Duodenum
22	chr13:96293400-96293800	Flanking Active TSS	Fetal Brain Female	brain
23	chr13:96293400-96293800	Flanking Bivalent TSS/Enh	Fetal Lung	lung
24	chr13:96293400-96293800	Flanking Active TSS	Stomach Smooth Muscle	stomach
25	chr13:96293400-96293800	Genic enhancers	HSMMtube	muscle
26	chr13:96293400-96294000	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
27	chr13:96293400-96294000	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr13:96293400-96294400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr13:96293400-96294400	Active TSS	Rectal Smooth Muscle	rectum
30	chr13:96293400-96294600	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr13:96293400-96294600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr13:96293400-96294600	Enhancers	Fetal Brain Male	brain
33	chr13:96293400-96295400	Active TSS	Pancreatic Islets	Pancreatic Islet
34	chr13:96293400-96297400	Active TSS	Fetal Kidney	kidney
35	chr13:96293400-96297600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
36	chr13:96293600-96293800	Transcr. at gene 5' and 3'	HUES6 Cell Line	embryonic stem cell
37	chr13:96293600-96293800	Transcr. at gene 5' and 3'	HUES64 Cell Line	embryonic stem cell
38	chr13:96293600-96293800	Transcr. at gene 5' and 3'	Muscle Satellite Cultured Cells	--
39	chr13:96293600-96293800	Flanking Bivalent TSS/Enh	Brain Cingulate Gyrus	brain
40	chr13:96293600-96293800	Flanking Active TSS	Brain Germinal Matrix	brain
41	chr13:96293600-96293800	Flanking Active TSS	Brain Substantia Nigra	brain
42	chr13:96293600-96293800	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
43	chr13:96293600-96293800	Enhancers	Fetal Heart	heart
44	chr13:96293600-96293800	Flanking Bivalent TSS/Enh	Fetal Intestine Small	intestine
45	chr13:96293600-96293800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
46	chr13:96293600-96293800	Bivalent Enhancer	Fetal Muscle Leg	muscle
47	chr13:96293600-96293800	Enhancers	Gastric	stomach
48	chr13:96293600-96293800	Enhancers	Left Ventricle	heart
49	chr13:96293600-96293800	Transcr. at gene 5' and 3'	Pancreas	Pancrea
50	chr13:96293600-96293800	Flanking Bivalent TSS/Enh	Rectal Mucosa Donor 29	rectum

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