Variant report

Variant	rs28857503
Chromosome Location	chr19:19397835-19397836
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10402729	0.87[AMR][1000 genomes]
rs10402799	0.92[AFR][1000 genomes]
rs10408216	0.94[AFR][1000 genomes]
rs10413309	0.92[AFR][1000 genomes]
rs10413995	0.87[AMR][1000 genomes]
rs10414990	0.87[AMR][1000 genomes]
rs10416520	0.87[AMR][1000 genomes]
rs10417330	0.87[AMR][1000 genomes]
rs10417715	0.96[AFR][1000 genomes]
rs10422331	0.90[AFR][1000 genomes]
rs10422620	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10423747	0.96[AFR][1000 genomes]
rs10425084	0.87[AMR][1000 genomes]
rs12327663	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13344498	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs16996031	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16996042	0.83[AFR][1000 genomes]
rs2106699	0.83[AFR][1000 genomes]
rs2315280	0.82[AFR][1000 genomes]
rs28437425	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55877107	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56304704	0.92[AFR][1000 genomes]
rs56317107	0.92[AFR][1000 genomes]
rs57002012	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs58409825	0.87[AMR][1000 genomes]
rs60860168	0.92[AFR][1000 genomes]
rs73922864	0.92[AFR][1000 genomes]
rs73922870	0.92[AFR][1000 genomes]
rs8110508	0.82[AFR][1000 genomes]

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	nsv911303	chr19:19256870-19505087	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv911304	chr19:19303802-19408164	Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Weak transcription Genic enhancers Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv911305	chr19:19303802-19663850	Genic enhancers Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:19384400-19430600	Weak transcription	Right Atrium	heart
2	chr19:19384800-19403200	Weak transcription	HUVEC	blood vessel
3	chr19:19385200-19403400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr19:19385400-19409800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr19:19385400-19428400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr19:19385600-19401200	Strong transcription	Primary T cells from cord blood	blood
7	chr19:19385600-19401600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
8	chr19:19385600-19403200	Strong transcription	Fetal Stomach	stomach
9	chr19:19385600-19403600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr19:19385600-19410000	Strong transcription	Stomach Smooth Muscle	stomach
11	chr19:19385800-19398200	Strong transcription	Left Ventricle	heart
12	chr19:19385800-19398600	Strong transcription	Brain Hippocampus Middle	brain
13	chr19:19385800-19399200	Strong transcription	Duodenum Smooth Muscle	Duodenum
14	chr19:19385800-19401200	Strong transcription	Adipose Nuclei	Adipose
15	chr19:19385800-19402200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr19:19385800-19402400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
17	chr19:19385800-19403200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr19:19385800-19409600	Strong transcription	Primary neutrophils fromperipheralblood	blood
19	chr19:19385800-19410000	Strong transcription	Monocytes-CD14+_RO01746	blood
20	chr19:19386000-19401200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
21	chr19:19386000-19401200	Strong transcription	Primary B cells from peripheral blood	blood
22	chr19:19386000-19415200	Strong transcription	Cortex derived primary cultured neurospheres	brain
23	chr19:19386200-19401200	Strong transcription	Fetal Thymus	thymus
24	chr19:19386200-19401400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr19:19386200-19408200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr19:19386200-19421000	Weak transcription	Stomach Mucosa	stomach
27	chr19:19386400-19399000	Strong transcription	H1 Cell Line	embryonic stem cell
28	chr19:19386400-19401400	Strong transcription	HUES6 Cell Line	embryonic stem cell
29	chr19:19386400-19405400	Strong transcription	HUES48 Cell Line	embryonic stem cell
30	chr19:19386800-19401200	Strong transcription	Duodenum Mucosa	Duodenum
31	chr19:19386800-19403200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr19:19386800-19403400	Strong transcription	Primary T cells fromperipheralblood	blood
33	chr19:19386800-19405200	Strong transcription	Liver	Liver
34	chr19:19386800-19428400	Strong transcription	Fetal Intestine Small	intestine
35	chr19:19387000-19408600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
36	chr19:19387200-19408400	Strong transcription	HUES64 Cell Line	embryonic stem cell
37	chr19:19388000-19401600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr19:19388000-19403600	Weak transcription	HSMM	muscle
39	chr19:19388000-19429000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr19:19388600-19401400	Strong transcription	Placenta	Placenta
41	chr19:19389000-19399200	Strong transcription	Fetal Lung	lung
42	chr19:19389200-19412800	Weak transcription	HMEC	breast
43	chr19:19389600-19419000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
44	chr19:19390400-19411800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
45	chr19:19390400-19412200	Weak transcription	Pancreatic Islets	Pancreatic Islet
46	chr19:19390800-19404400	Weak transcription	A549	lung
47	chr19:19390800-19430000	Weak transcription	Psoas Muscle	Psoas
48	chr19:19391800-19399000	Strong transcription	Brain Inferior Temporal Lobe	brain
49	chr19:19392000-19401200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr19:19392200-19407000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links