Variant report

Variant	rs11881503
Chromosome Location	chr19:38494179-38494180
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:38487801..38491019-chr19:38493039..38496104,5	MCF-7	breast:
2	chr19:38483729..38485746-chr19:38492627..38494202,2	MCF-7	breast:
3	chr19:38397211..38400435-chr19:38493198..38497006,5	MCF-7	breast:
4	chr19:38490534..38492091-chr19:38493465..38495322,2	MCF-7	breast:
5	chr19:38472838..38474664-chr19:38494090..38496793,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000171804	Chromatin interaction
ENSG00000105738	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11879553	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs11881136	1.00[EUR][1000 genomes]
rs16978902	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35447904	1.00[EUR][1000 genomes]
rs56140434	1.00[EUR][1000 genomes]
rs56880853	0.80[AFR][1000 genomes]
rs57771568	1.00[EUR][1000 genomes]
rs57910731	1.00[EUR][1000 genomes]
rs58512019	1.00[EUR][1000 genomes]
rs705490	1.00[EUR][1000 genomes]
rs705498	1.00[EUR][1000 genomes]
rs7248658	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7257055	1.00[EUR][1000 genomes]
rs7257668	1.00[EUR][1000 genomes]
rs73627652	1.00[EUR][1000 genomes]
rs73628610	0.90[AMR][1000 genomes]
rs73628634	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73628691	0.90[AMR][1000 genomes]
rs8100641	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs8100668	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs8101927	1.00[EUR][1000 genomes]
rs8104392	1.00[EUR][1000 genomes]
rs8105848	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8105919	1.00[EUR][1000 genomes]
rs8112492	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8112893	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8113411	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[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	nsv949296	chr19:38034722-38763140	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38474800-38513600	Weak transcription	Gastric	stomach
2	chr19:38485800-38496000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr19:38490400-38495800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr19:38492600-38494800	Enhancers	Primary T helper naive cells from peripheral blood	blood
5	chr19:38492800-38494400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr19:38493000-38495000	Enhancers	Primary T cells fromperipheralblood	blood
7	chr19:38493400-38494200	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr19:38493400-38494600	Enhancers	Stomach Mucosa	stomach
9	chr19:38493400-38494800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr19:38493400-38494800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
11	chr19:38493400-38497800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
12	chr19:38493600-38494200	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
13	chr19:38493600-38494400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
14	chr19:38493600-38494400	Enhancers	Lung	lung
15	chr19:38493600-38494800	Enhancers	Primary T helper cells fromperipheralblood	blood
16	chr19:38493600-38495200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr19:38493600-38495200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr19:38493600-38495600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr19:38493600-38496000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr19:38493800-38494200	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr19:38493800-38494200	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
22	chr19:38493800-38494200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
23	chr19:38493800-38494200	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
24	chr19:38493800-38494200	Flanking Active TSS	Brain Hippocampus Middle	brain
25	chr19:38493800-38494200	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
26	chr19:38493800-38494200	Flanking Active TSS	Fetal Brain Female	brain
27	chr19:38493800-38494200	Enhancers	Thymus	Thymus
28	chr19:38493800-38494200	Flanking Active TSS	HUVEC	blood vessel
29	chr19:38493800-38494200	Flanking Active TSS	NHLF	lung
30	chr19:38493800-38494400	Flanking Active TSS	Primary T cells from cord blood	blood
31	chr19:38493800-38494400	Flanking Active TSS	Brain Cingulate Gyrus	brain
32	chr19:38493800-38494400	Flanking Active TSS	Duodenum Mucosa	Duodenum
33	chr19:38493800-38494400	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
34	chr19:38493800-38494600	Enhancers	Primary T killer memory cells from peripheral blood	blood
35	chr19:38493800-38494600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr19:38493800-38494600	Enhancers	Small Intestine	intestine
37	chr19:38493800-38494800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
38	chr19:38493800-38494800	Flanking Active TSS	Fetal Kidney	kidney
39	chr19:38493800-38494800	Flanking Active TSS	Stomach Smooth Muscle	stomach
40	chr19:38493800-38495000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr19:38493800-38495000	Flanking Active TSS	Brain Angular Gyrus	brain
42	chr19:38493800-38495000	Flanking Active TSS	Colon Smooth Muscle	Colon
43	chr19:38493800-38495000	Flanking Active TSS	Fetal Brain Male	brain
44	chr19:38493800-38495200	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr19:38493800-38495200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr19:38493800-38495200	Flanking Active TSS	Primary B cells from cord blood	blood
47	chr19:38493800-38495200	Flanking Active TSS	Primary B cells from peripheral blood	blood
48	chr19:38493800-38495200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr19:38493800-38495200	Active TSS	Pancreatic Islets	Pancreatic Islet
50	chr19:38493800-38495200	Enhancers	Dnd41	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links