Variant report

Variant	rs8028886
Chromosome Location	chr15:41955373-41955374
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:41953002..41954579-chr15:41954789..41956484,2	MCF-7	breast:
2	chr15:41952932..41955703-chr15:42081114..42083481,2	K562	blood:
3	chr15:41847317..41853712-chr15:41951201..41955578,8	K562	blood:
4	chr15:41953663..41957556-chr15:41966682..41969969,3	K562	blood:
5	chr15:41954100..41955680-chr15:41982898..41984506,2	MCF-7	breast:
6	chr15:41853373..41858542-chr15:41950830..41955637,10	K562	blood:
7	chr15:41952704..41955677-chr15:42269856..42272362,2	K562	blood:
8	chr15:41954590..41956853-chr15:41972603..41974738,2	K562	blood:
9	chr15:41954547..41956323-chr15:41964116..41966547,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000092445	Chromatin interaction
ENSG00000259838	Chromatin interaction
ENSG00000207766	Chromatin interaction

Extended variants
information (count: 96 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs10152332	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10152364	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10775122	0.81[AMR][1000 genomes]
rs10775123	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10775124	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1081022	0.90[EUR][1000 genomes]
rs11070345	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11070347	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11070350	0.83[EUR][1000 genomes]
rs11632100	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11634840	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11639146	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11639249	0.81[ASN][1000 genomes]
rs1197666	0.81[EUR][1000 genomes]
rs1197670	0.83[EUR][1000 genomes]
rs1197768	0.87[ASN][1000 genomes]
rs1197769	0.87[ASN][1000 genomes]
rs1197772	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12148330	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12441249	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12900295	0.84[AMR][1000 genomes]
rs12915325	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12916525	0.82[AMR][1000 genomes]
rs12916992	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1648827	0.83[EUR][1000 genomes]
rs1648828	0.83[EUR][1000 genomes]
rs1648829	0.82[EUR][1000 genomes]
rs1648830	0.83[EUR][1000 genomes]
rs1648831	0.83[EUR][1000 genomes]
rs1648832	0.83[EUR][1000 genomes]
rs1648833	0.83[EUR][1000 genomes]
rs1648834	0.83[EUR][1000 genomes]
rs1648835	0.83[EUR][1000 genomes]
rs1672464	0.83[EUR][1000 genomes]
rs1672465	0.83[EUR][1000 genomes]
rs1672466	0.83[EUR][1000 genomes]
rs1867416	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1867417	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1880937	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1880938	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1899819	0.81[AMR][1000 genomes]
rs1899820	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1899821	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1918314	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2009310	0.88[ASN][1000 genomes]
rs2141141	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2178004	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2250964	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2577947	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2577950	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2577951	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2577952	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2577953	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2577954	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2577955	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2577958	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2577959	0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2605570	0.86[ASN][1000 genomes]
rs2695162	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2695163	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2695164	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2695166	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2695168	0.89[ASN][1000 genomes]
rs2695169	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2918051	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2925337	0.84[ASN][1000 genomes]
rs2950446	0.86[ASN][1000 genomes]
rs3784282	0.80[EUR][1000 genomes]
rs4078788	0.80[EUR][1000 genomes]
rs4244585	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4270151	0.89[ASN][1000 genomes]
rs4371125	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4465584	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4923908	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4924568	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4924571	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4924572	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57498313	0.83[EUR][1000 genomes]
rs62002069	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6493008	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6493010	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7164209	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7165230	0.83[EUR][1000 genomes]
rs7169496	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7169668	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7176474	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7177232	0.82[AMR][1000 genomes]
rs7177911	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7178205	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8027390	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8030179	0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8034261	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8038148	0.80[ASN][1000 genomes]
rs8038783	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8039440	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs890508	0.83[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs8028886	MGA	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41951800-41955400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr15:41952000-41955400	Flanking Active TSS	Dnd41	blood
3	chr15:41954000-41955800	Active TSS	K562	blood
4	chr15:41954200-41962600	Weak transcription	Spleen	Spleen
5	chr15:41954400-41961600	Weak transcription	Gastric	stomach
6	chr15:41954400-41964600	Weak transcription	Lung	lung
7	chr15:41954400-41970600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr15:41954400-41978600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr15:41954400-41982800	Weak transcription	Small Intestine	intestine
10	chr15:41954600-41955400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
11	chr15:41954600-41955400	Enhancers	Brain Substantia Nigra	brain
12	chr15:41954600-41955400	Enhancers	Fetal Brain Male	brain
13	chr15:41954600-41955800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr15:41954600-41955800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr15:41954600-41956400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
16	chr15:41954600-41957400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
17	chr15:41954600-41957400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr15:41954600-41957600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr15:41954600-41957600	Weak transcription	Pancreas	Pancrea
20	chr15:41954600-41958200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr15:41954600-41958400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr15:41954600-41958400	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr15:41954600-41958600	Weak transcription	NHLF	lung
24	chr15:41954600-41958800	Weak transcription	Colon Smooth Muscle	Colon
25	chr15:41954600-41960400	Weak transcription	Primary T cells fromperipheralblood	blood
26	chr15:41954600-41961000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr15:41954600-41961000	Weak transcription	Fetal Thymus	thymus
28	chr15:41954600-41961200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr15:41954600-41961200	Weak transcription	Aorta	Aorta
30	chr15:41954600-41961200	Weak transcription	Fetal Muscle Leg	muscle
31	chr15:41954600-41961400	Weak transcription	Fetal Muscle Trunk	muscle
32	chr15:41954600-41961400	Weak transcription	Ovary	ovary
33	chr15:41954600-41961600	Weak transcription	Esophagus	oesophagus
34	chr15:41954600-41961600	Weak transcription	Placenta	Placenta
35	chr15:41954600-41961600	Weak transcription	Right Atrium	heart
36	chr15:41954600-41961600	Weak transcription	Right Ventricle	heart
37	chr15:41954600-41961800	Weak transcription	Brain Cingulate Gyrus	brain
38	chr15:41954600-41964000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr15:41954600-41964000	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr15:41954600-41964200	Weak transcription	Fetal Stomach	stomach
41	chr15:41954600-41964800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr15:41954600-41965600	Weak transcription	Left Ventricle	heart
43	chr15:41954600-41976200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
44	chr15:41954600-41983800	Weak transcription	Thymus	Thymus
45	chr15:41954600-42001000	Weak transcription	Colonic Mucosa	Colon
46	chr15:41954800-41955400	Enhancers	Brain Germinal Matrix	brain
47	chr15:41954800-41955400	Enhancers	Fetal Kidney	kidney
48	chr15:41954800-41955400	Enhancers	Pancreatic Islets	Pancreatic Islet
49	chr15:41954800-41955400	Enhancers	Fetal Lung	lung
50	chr15:41954800-41955600	Enhancers	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links