Variant report

Variant	rs17447803
Chromosome Location	chr3:112077880-112077881
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs17513698	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17513726	0.89[ASW][hapmap];1.00[CEU][hapmap];0.96[GIH][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1996722	0.82[EUR][1000 genomes]
rs2399426	0.81[EUR][1000 genomes]
rs4682401	0.83[EUR][1000 genomes]
rs56037521	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs57785180	0.81[EUR][1000 genomes]
rs62264131	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62264132	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62264133	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62264134	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62264135	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62264136	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62264137	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6785965	0.81[EUR][1000 genomes]
rs73227438	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7611568	0.82[EUR][1000 genomes]
rs7621578	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7653398	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv10307	chr3:111903974-112087686	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112054800-112083000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:112055600-112080200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr3:112061200-112083000	Weak transcription	Colonic Mucosa	Colon
4	chr3:112062400-112083000	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr3:112065600-112079600	Weak transcription	Fetal Intestine Large	intestine
6	chr3:112066000-112089800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:112067000-112079400	Weak transcription	Rectal Smooth Muscle	rectum
8	chr3:112067200-112079800	Weak transcription	Fetal Stomach	stomach
9	chr3:112067200-112080400	Weak transcription	Fetal Muscle Trunk	muscle
10	chr3:112069200-112084000	Weak transcription	Fetal Kidney	kidney
11	chr3:112069200-112095400	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr3:112070200-112086200	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr3:112070600-112080400	Weak transcription	Brain Angular Gyrus	brain
14	chr3:112070600-112080400	Weak transcription	Brain Anterior Caudate	brain
15	chr3:112070600-112086200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr3:112070600-112088800	Weak transcription	Brain Cingulate Gyrus	brain
17	chr3:112070800-112079600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr3:112070800-112084600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr3:112070800-112090600	Weak transcription	Brain Hippocampus Middle	brain
20	chr3:112071000-112083000	Weak transcription	Brain Substantia Nigra	brain
21	chr3:112071200-112083800	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr3:112071800-112079400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr3:112072000-112080600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr3:112072400-112080400	Weak transcription	Fetal Brain Male	brain
25	chr3:112073000-112080400	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr3:112073400-112079600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr3:112074200-112079600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr3:112074600-112078000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr3:112075200-112078200	Genic enhancers	iPS-18 Cell Line	embryonic stem cell
30	chr3:112076200-112078200	Enhancers	Primary B cells from peripheral blood	blood
31	chr3:112076400-112078000	Genic enhancers	HUES48 Cell Line	embryonic stem cell
32	chr3:112076400-112078000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
33	chr3:112076800-112078200	Genic enhancers	HUES64 Cell Line	embryonic stem cell
34	chr3:112076800-112078400	Enhancers	iPS-15b Cell Line	embryonic stem cell
35	chr3:112077000-112078000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
36	chr3:112077000-112079400	Weak transcription	Fetal Thymus	thymus
37	chr3:112077000-112079600	Weak transcription	Fetal Lung	lung
38	chr3:112077000-112083000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr3:112077200-112078000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr3:112077200-112078000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr3:112077200-112078000	Flanking Active TSS	GM12878-XiMat	blood
42	chr3:112077200-112078800	Weak transcription	Placenta	Placenta
43	chr3:112077200-112079400	Weak transcription	Brain Germinal Matrix	brain
44	chr3:112077200-112079600	Weak transcription	Thymus	Thymus
45	chr3:112077200-112081200	Active TSS	Right Atrium	heart
46	chr3:112077200-112082000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
47	chr3:112077200-112094200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr3:112077400-112078000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr3:112077400-112078000	Flanking Active TSS	Adipose Nuclei	Adipose
50	chr3:112077400-112079600	Weak transcription	Fetal Brain Female	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links