Variant report

Variant	rs28441321
Chromosome Location	chr1:169989968-169989969
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11584929	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1330377	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1541160	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2065950	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2474708	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs476269	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs522444	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs527261	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs541655	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs541896	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs546894	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs549002	0.84[AFR][1000 genomes]
rs571398	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs614044	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs628436	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6427232	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs648576	0.86[AFR][1000 genomes]
rs6668310	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6694304	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs693673	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72715936	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7539241	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9427175	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs973015	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv1014033	chr1:169968488-170453021	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
2	nsv535200	chr1:169968488-170453021	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169904000-170010400	Weak transcription	Aorta	Aorta
2	chr1:169922400-169996400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr1:169951600-170011800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr1:169952000-170018000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
5	chr1:169952400-170043000	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr1:169956800-169997400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr1:169967600-170013000	Weak transcription	Fetal Heart	heart
8	chr1:169968800-169999400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr1:169968800-170010800	Weak transcription	Colon Smooth Muscle	Colon
10	chr1:169968800-170020200	Weak transcription	Brain Angular Gyrus	brain
11	chr1:169969000-169997400	Weak transcription	Fetal Stomach	stomach
12	chr1:169969000-170012600	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr1:169969600-170017800	Weak transcription	Esophagus	oesophagus
14	chr1:169971400-169996400	Weak transcription	NHDF-Ad	bronchial
15	chr1:169979400-169995800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr1:169979400-170018000	Weak transcription	Brain Cingulate Gyrus	brain
17	chr1:169979800-170015200	Weak transcription	HMEC	breast
18	chr1:169980000-170006600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
19	chr1:169980600-169997400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr1:169981600-170013400	Weak transcription	Lung	lung
21	chr1:169982400-170020600	Weak transcription	Rectal Smooth Muscle	rectum
22	chr1:169982800-169994000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr1:169983000-170017200	Weak transcription	HSMMtube	muscle
24	chr1:169983400-169995400	Weak transcription	Monocytes-CD14+_RO01746	blood
25	chr1:169983400-169996000	Weak transcription	Primary monocytes fromperipheralblood	blood
26	chr1:169983800-170017600	Weak transcription	Spleen	Spleen
27	chr1:169984600-170020800	Weak transcription	Gastric	stomach
28	chr1:169984800-170027600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
29	chr1:169985000-169995400	Weak transcription	GM12878-XiMat	blood
30	chr1:169985000-169996600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr1:169985000-170010800	Weak transcription	Brain Hippocampus Middle	brain
32	chr1:169985000-170012800	Weak transcription	Brain Anterior Caudate	brain
33	chr1:169985200-169997000	Weak transcription	Primary B cells from cord blood	blood
34	chr1:169985200-170020400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
35	chr1:169985800-169991400	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr1:169985800-169992600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr1:169985800-169996400	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr1:169985800-170003000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
39	chr1:169985800-170010800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr1:169985800-170010800	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr1:169986000-169996600	Weak transcription	Primary B cells from peripheral blood	blood
42	chr1:169986200-169993400	Weak transcription	Liver	Liver
43	chr1:169986200-169995000	Weak transcription	Pancreas	Pancrea
44	chr1:169986200-169995200	Weak transcription	Duodenum Mucosa	Duodenum
45	chr1:169986200-169995600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr1:169986200-169996000	Weak transcription	Fetal Intestine Large	intestine
47	chr1:169986200-169996200	Weak transcription	Primary T helper cells PMA-I stimulated	--
48	chr1:169986200-169996400	Weak transcription	Adipose Nuclei	Adipose
49	chr1:169986200-169996600	Weak transcription	Primary T cells from cord blood	blood
50	chr1:169986200-170006600	Weak transcription	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links