Variant report

Variant	rs1564980
Chromosome Location	chr16:48651377-48651378
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	REST	chr16:48651207-48652155	H1-neurons	neurons:	n/a	n/a
2	ZNF384	chr16:48650955-48651405	K562	blood:	n/a	n/a

Variant related genes	Relation type
ENSG00000259912	TF binding region

Extended variants
information (count: 149 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:149)

rs_ID	r²[population]
rs1039340	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1039341	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1039342	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1039343	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1039344	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1106386	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11076570	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11076571	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11076572	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11076573	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11076578	0.82[AMR][1000 genomes]
rs1115758	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1115759	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1120275	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1120276	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11495819	0.87[AMR][1000 genomes]
rs11640119	0.82[AMR][1000 genomes]
rs11640463	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11641458	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11643272	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11644518	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11645193	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11647046	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11647048	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11649236	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11859909	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1224	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12444902	0.82[AMR][1000 genomes]
rs12446280	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12597928	0.83[AMR][1000 genomes]
rs12598514	0.85[AMR][1000 genomes]
rs12933948	0.86[AMR][1000 genomes]
rs12935540	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13330784	0.82[AMR][1000 genomes]
rs13331298	0.82[AMR][1000 genomes]
rs13331902	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13332125	0.82[AMR][1000 genomes]
rs13335847	0.81[EUR][1000 genomes]
rs1386040	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1386042	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1477134	0.86[AMR][1000 genomes]
rs1486411	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1486412	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1558815	0.82[AMR][1000 genomes]
rs1564979	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16946340	0.82[AMR][1000 genomes]
rs16946342	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17826468	0.83[EUR][1000 genomes]
rs1825683	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1872652	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1872654	0.86[AMR][1000 genomes]
rs1872655	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1909765	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1987061	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2041921	0.82[AMR][1000 genomes]
rs2080507	0.86[AMR][1000 genomes]
rs2080508	0.87[AMR][1000 genomes]
rs2101372	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2129243	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2354578	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2354579	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28432694	0.83[AMR][1000 genomes]
rs28481630	0.83[AMR][1000 genomes]
rs28577888	0.85[AMR][1000 genomes]
rs2883641	0.82[AMR][1000 genomes]
rs36077931	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3743779	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3743780	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3817029	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3826174	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3843724	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3848319	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3848320	0.82[AMR][1000 genomes]
rs3848321	0.83[EUR][1000 genomes]
rs3848322	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4277341	0.83[AMR][1000 genomes]
rs4471681	0.83[AMR][1000 genomes]
rs4493038	0.86[AMR][1000 genomes]
rs4785247	0.87[AMR][1000 genomes]
rs4785248	0.86[AMR][1000 genomes]
rs4785528	0.85[AMR][1000 genomes]
rs55671623	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6500395	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6500396	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6500397	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6500398	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6500405	0.86[AMR][1000 genomes]
rs7184070	0.86[AMR][1000 genomes]
rs7184144	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7185541	0.83[AMR][1000 genomes]
rs7185899	0.82[AMR][1000 genomes]
rs7187513	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7188741	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7191028	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7191225	0.83[AMR][1000 genomes]
rs7192297	0.86[AMR][1000 genomes]
rs7194570	0.86[AMR][1000 genomes]
rs7195684	0.84[AMR][1000 genomes]
rs7196823	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7197732	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7198145	0.82[AMR][1000 genomes]
rs7198773	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7199206	0.86[AMR][1000 genomes]
rs7199625	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7201196	0.86[AMR][1000 genomes]
rs7204345	0.82[AMR][1000 genomes]
rs74017013	0.83[AMR][1000 genomes]
rs8044519	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs8050844	0.83[AMR][1000 genomes]
rs8052073	0.86[AMR][1000 genomes]
rs8052640	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs8053598	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs8057777	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs8058362	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs8059819	0.87[AMR][1000 genomes]
rs8059905	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs868792	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs871902	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs989070	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9921737	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9921741	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9922356	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9922734	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9923371	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9923753	0.83[EUR][1000 genomes]
rs9924483	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9925406	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9930199	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9931123	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9931737	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9933329	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9933976	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9934626	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9934844	0.88[AMR][1000 genomes]
rs9936004	0.82[EUR][1000 genomes]
rs9936271	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9936445	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9936446	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9936454	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9937134	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9937568	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9937610	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9937623	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9938126	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9938308	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9938890	0.82[EUR][1000 genomes]
rs9939103	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9941275	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9941336	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1564980	N4BP1	cis	multi-tissue	Pritchard

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:48644200-48655400	Weak transcription	Spleen	Spleen
2	chr16:48644600-48656600	Weak transcription	Esophagus	oesophagus
3	chr16:48644800-48651600	Weak transcription	Brain Cingulate Gyrus	brain
4	chr16:48645000-48651400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr16:48645200-48651600	Weak transcription	NH-A	brain
6	chr16:48645400-48651400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr16:48645400-48651400	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr16:48645400-48651400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr16:48645800-48651400	Weak transcription	Fetal Brain Female	brain
10	chr16:48646000-48651800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr16:48646000-48655200	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr16:48646000-48656600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr16:48646000-48657000	Weak transcription	Pancreas	Pancrea
14	chr16:48646400-48651600	Weak transcription	Psoas Muscle	Psoas
15	chr16:48647200-48655400	Weak transcription	Liver	Liver
16	chr16:48647200-48657000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr16:48647400-48651400	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr16:48647600-48651400	Weak transcription	Fetal Lung	lung
19	chr16:48647600-48651400	Weak transcription	Hela-S3	cervix
20	chr16:48647600-48651600	Weak transcription	Brain Substantia Nigra	brain
21	chr16:48647600-48655400	Weak transcription	Colonic Mucosa	Colon
22	chr16:48647800-48651400	Weak transcription	Primary hematopoietic stem cells	blood
23	chr16:48647800-48651400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr16:48647800-48651400	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr16:48647800-48651600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr16:48647800-48651600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr16:48647800-48651600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr16:48647800-48651600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr16:48647800-48651600	Weak transcription	Rectal Smooth Muscle	rectum
30	chr16:48647800-48651600	Weak transcription	HMEC	breast
31	chr16:48647800-48651600	Weak transcription	K562	blood
32	chr16:48647800-48652000	Enhancers	Primary neutrophils fromperipheralblood	blood
33	chr16:48647800-48654400	Weak transcription	Primary B cells from cord blood	blood
34	chr16:48647800-48655000	Weak transcription	Fetal Thymus	thymus
35	chr16:48647800-48655200	Weak transcription	GM12878-XiMat	blood
36	chr16:48647800-48655400	Weak transcription	Duodenum Mucosa	Duodenum
37	chr16:48647800-48656400	Weak transcription	Stomach Mucosa	stomach
38	chr16:48647800-48656400	Weak transcription	NHEK	skin
39	chr16:48647800-48656600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr16:48648400-48651400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr16:48648400-48651400	Weak transcription	HepG2	liver
42	chr16:48648400-48654800	Weak transcription	Primary T helper cells fromperipheralblood	blood
43	chr16:48648600-48653400	Weak transcription	Rectal Mucosa Donor 31	rectum
44	chr16:48648600-48655200	Weak transcription	Thymus	Thymus
45	chr16:48648600-48656600	Weak transcription	Fetal Intestine Large	intestine
46	chr16:48648600-48657000	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr16:48648800-48651600	Weak transcription	Placenta	Placenta
48	chr16:48649800-48651800	Enhancers	Primary T helper cells PMA-I stimulated	--
49	chr16:48650000-48651600	Enhancers	Primary T cells fromperipheralblood	blood
50	chr16:48650000-48652200	Enhancers	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links