Variant report

Variant	rs16919563
Chromosome Location	chr8:54713480-54713481
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 93 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:89)

rs_ID	r²[population]
rs1031979	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.95[ASN][1000 genomes]
rs1031980	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10435587	1.00[CEU][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10504158	0.83[YRI][hapmap]
rs11994467	0.84[ASN][1000 genomes]
rs11996300	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12056486	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12056719	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12115070	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12234972	0.85[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13276766	0.81[ASN][1000 genomes]
rs1552148	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16919507	1.00[CEU][hapmap];0.86[CHB][hapmap]
rs16919508	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs16919522	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs16919534	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs16919537	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs16919541	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs16919571	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16919573	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1872063	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1905061	1.00[CEU][hapmap];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2128150	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2170444	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2376011	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs3735831	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3757954	1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs41321146	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4236945	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4737192	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4737518	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4737554	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4737558	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4737761	0.87[CEU][hapmap]
rs4737764	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4737765	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4737821	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4737974	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4738025	1.00[CEU][hapmap]
rs4738027	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs4738470	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4738646	0.89[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4738701	1.00[CEU][hapmap];0.86[CHB][hapmap];0.84[AMR][1000 genomes]
rs4738884	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4738916	1.00[CEU][hapmap];0.92[ASN][1000 genomes]
rs55682919	0.84[AMR][1000 genomes]
rs55876329	0.95[ASN][1000 genomes]
rs55964335	0.93[ASN][1000 genomes]
rs56818292	0.89[ASN][1000 genomes]
rs56956173	0.87[EUR][1000 genomes]
rs56973376	0.95[ASN][1000 genomes]
rs57071607	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs57550901	0.84[AMR][1000 genomes]
rs58473841	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs58558817	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58970885	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs61070518	0.84[ASN][1000 genomes]
rs6473893	1.00[CEU][hapmap]
rs6984257	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6986372	0.85[CEU][hapmap];0.80[CHB][hapmap];0.90[JPT][hapmap];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6987427	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs6988009	1.00[CEU][hapmap];0.91[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6988082	1.00[CEU][hapmap];0.86[CHB][hapmap];0.84[AMR][1000 genomes]
rs6988808	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6988812	0.90[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6994851	1.00[CEU][hapmap]
rs6997003	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6997127	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6999454	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs7005696	1.00[CEU][hapmap]
rs7006934	0.87[CEU][hapmap];0.82[CHB][hapmap]
rs7009705	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7017291	0.83[YRI][hapmap]
rs7018162	1.00[CEU][hapmap];0.98[ASN][1000 genomes]
rs73587624	0.89[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73587627	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs73680316	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73680321	0.87[EUR][1000 genomes]
rs73682552	0.80[AMR][1000 genomes]
rs73682555	0.93[ASN][1000 genomes]
rs73682568	0.93[ASN][1000 genomes]
rs73682570	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7387704	0.86[AMR][1000 genomes]
rs7843701	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs900163	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs958268	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9643480	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9643819	1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9643820	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758159	chr8:54474589-54737473	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv2759616	chr8:54474589-54737473	Weak transcription Enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1021775	chr8:54631303-54827173	Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv539621	chr8:54631303-54827173	Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:54655800-54726000	Weak transcription	Colonic Mucosa	Colon
2	chr8:54667800-54726200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr8:54681000-54726200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr8:54686400-54745800	Weak transcription	Psoas Muscle	Psoas
5	chr8:54687600-54753600	Weak transcription	A549	lung
6	chr8:54691800-54726400	Weak transcription	Stomach Mucosa	stomach
7	chr8:54698600-54716000	Weak transcription	Fetal Heart	heart
8	chr8:54699200-54720000	Strong transcription	Primary monocytes fromperipheralblood	blood
9	chr8:54700000-54740400	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr8:54700200-54731600	Strong transcription	Monocytes-CD14+_RO01746	blood
11	chr8:54700400-54714800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr8:54700800-54715200	Strong transcription	Dnd41	blood
13	chr8:54702600-54713800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr8:54702600-54714600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
15	chr8:54703000-54715400	Strong transcription	Primary T cells fromperipheralblood	blood
16	chr8:54703000-54728000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr8:54703200-54714800	Strong transcription	Primary B cells from cord blood	blood
18	chr8:54703400-54725200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr8:54704000-54721600	Weak transcription	Brain Cingulate Gyrus	brain
20	chr8:54704400-54720000	Weak transcription	Brain Substantia Nigra	brain
21	chr8:54705000-54714600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr8:54705200-54726000	Weak transcription	Right Ventricle	heart
23	chr8:54705200-54726200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr8:54705400-54727800	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr8:54706200-54714800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr8:54706200-54715000	Strong transcription	Primary B cells from peripheral blood	blood
27	chr8:54706400-54714600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr8:54707200-54714800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
29	chr8:54707400-54714600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr8:54707800-54740400	Weak transcription	K562	blood
31	chr8:54708000-54725800	Weak transcription	Fetal Kidney	kidney
32	chr8:54708000-54726200	Weak transcription	HepG2	liver
33	chr8:54708400-54721600	Weak transcription	Fetal Brain Female	brain
34	chr8:54708600-54724600	Weak transcription	Brain Germinal Matrix	brain
35	chr8:54708800-54714000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr8:54708800-54719400	Weak transcription	HUVEC	blood vessel
37	chr8:54708800-54720200	Weak transcription	HSMMtube	muscle
38	chr8:54708800-54724800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr8:54709000-54714200	Weak transcription	Osteobl	bone
40	chr8:54709000-54740800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
41	chr8:54709400-54715200	Strong transcription	Fetal Intestine Large	intestine
42	chr8:54710000-54714600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr8:54710000-54720400	Weak transcription	Esophagus	oesophagus
44	chr8:54710000-54723600	Weak transcription	Cortex derived primary cultured neurospheres	brain
45	chr8:54710000-54726200	Weak transcription	HMEC	breast
46	chr8:54710000-54733000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr8:54710200-54714200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr8:54710200-54720000	Weak transcription	Small Intestine	intestine
49	chr8:54710200-54720200	Weak transcription	NHLF	lung
50	chr8:54710200-54720600	Weak transcription	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links