Variant report

Variant	rs6846427
Chromosome Location	chr4:56335448-56335449
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 111 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:107)

rs_ID	r²[population]
rs10002541	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10005989	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10009593	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10016506	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10026692	0.80[EUR][1000 genomes]
rs10034433	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10462035	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11133379	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11133382	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11133383	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11133394	0.94[ASN][1000 genomes]
rs11133399	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11726609	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11733864	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11735267	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11931061	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11939815	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11947476	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11947623	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12646078	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12647034	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs13102385	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13121235	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13128582	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13138697	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13152650	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1522106	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1522107	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1522108	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1522110	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1522111	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17085889	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1873092	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1965467	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1980273	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2130036	0.81[EUR][1000 genomes]
rs2140077	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2177129	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2412646	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2412647	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2412663	0.81[EUR][1000 genomes]
rs28445925	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28448438	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28463765	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28469692	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28514423	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28525309	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28572116	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28582059	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28670674	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28673496	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28790098	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35767091	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3736544	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3736545	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3805147	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3805152	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3805154	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3805157	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3817444	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3828481	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4371676	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4580704	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs473005	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs480479	0.83[EUR][1000 genomes]
rs4864998	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4865008	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs564762	0.83[EUR][1000 genomes]
rs576779	0.83[EUR][1000 genomes]
rs59804446	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60797008	0.89[ASN][1000 genomes]
rs60992571	0.81[EUR][1000 genomes]
rs62303714	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62309727	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6554280	0.83[EUR][1000 genomes]
rs6554286	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6554292	0.80[EUR][1000 genomes]
rs6810948	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6811520	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6812042	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6815516	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6817267	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6817663	0.81[EUR][1000 genomes]
rs6819660	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6824057	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6824955	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6825994	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6829182	0.81[EUR][1000 genomes]
rs6832769	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6834676	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6837710	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6839788	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6850524	0.94[ASN][1000 genomes]
rs6851838	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6853192	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs726967	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7667849	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7668147	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7670225	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7673908	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7677526	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7684810	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9312662	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9684708	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9997288	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9998038	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9998146	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[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	esv3328582	chr4:56164136-56486156	Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv999477	chr4:56219035-56397180	Enhancers Strong transcription Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv537101	chr4:56219035-56397180	Weak transcription Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	esv2755990	chr4:56317136-57143037	Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:56290800-56340400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr4:56290800-56340600	Weak transcription	Thymus	Thymus
3	chr4:56293000-56354800	Weak transcription	Aorta	Aorta
4	chr4:56294000-56341200	Weak transcription	Small Intestine	intestine
5	chr4:56301800-56339200	Weak transcription	Fetal Brain Male	brain
6	chr4:56302400-56375600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr4:56303000-56340200	Weak transcription	Colon Smooth Muscle	Colon
8	chr4:56304600-56365600	Weak transcription	Spleen	Spleen
9	chr4:56304800-56340000	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr4:56304800-56375800	Weak transcription	Pancreas	Pancrea
11	chr4:56306000-56361200	Weak transcription	Stomach Mucosa	stomach
12	chr4:56307600-56340400	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr4:56308800-56340400	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr4:56314400-56336600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr4:56314400-56340200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr4:56314400-56340800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr4:56314400-56356400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr4:56314400-56377200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr4:56315000-56340600	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr4:56315000-56340600	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr4:56315400-56357000	Weak transcription	Hela-S3	cervix
22	chr4:56315800-56341000	Weak transcription	Colonic Mucosa	Colon
23	chr4:56316200-56340400	Weak transcription	Fetal Heart	heart
24	chr4:56316400-56340200	Weak transcription	Fetal Thymus	thymus
25	chr4:56317000-56340000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr4:56317200-56340400	Weak transcription	Rectal Smooth Muscle	rectum
27	chr4:56317800-56340200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr4:56318600-56335600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr4:56318600-56335600	Weak transcription	Brain Germinal Matrix	brain
30	chr4:56318600-56363400	Weak transcription	HepG2	liver
31	chr4:56318800-56336200	Weak transcription	Fetal Lung	lung
32	chr4:56318800-56336400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr4:56318800-56340200	Weak transcription	A549	lung
34	chr4:56318800-56340400	Weak transcription	HSMMtube	muscle
35	chr4:56318800-56352400	Weak transcription	K562	blood
36	chr4:56318800-56358400	Weak transcription	Right Ventricle	heart
37	chr4:56319600-56340200	Weak transcription	Fetal Brain Female	brain
38	chr4:56321800-56336000	Weak transcription	Rectal Mucosa Donor 29	rectum
39	chr4:56321800-56341200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr4:56322200-56336400	Weak transcription	Primary T helper cells PMA-I stimulated	--
41	chr4:56323200-56337800	Weak transcription	Lung	lung
42	chr4:56323400-56340400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr4:56325200-56335800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr4:56325200-56336000	Weak transcription	Rectal Mucosa Donor 31	rectum
45	chr4:56325200-56340400	Weak transcription	NHLF	lung
46	chr4:56325400-56335800	Weak transcription	NHDF-Ad	bronchial
47	chr4:56325400-56336400	Weak transcription	HMEC	breast
48	chr4:56325400-56340400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
49	chr4:56325400-56340400	Weak transcription	NH-A	brain
50	chr4:56325600-56340200	Weak transcription	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links