Variant report

Variant	rs4687804
Chromosome Location	chr3:51478938-51478939
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10510757	0.81[AMR][1000 genomes]
rs10510758	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12485610	0.81[AMR][1000 genomes]
rs12487426	0.83[AMR][1000 genomes]
rs12489414	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12490471	0.81[AMR][1000 genomes]
rs12490889	0.84[AMR][1000 genomes]
rs12492624	0.83[AMR][1000 genomes]
rs12493618	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12493857	0.83[AMR][1000 genomes]
rs12494462	0.83[AMR][1000 genomes]
rs12494979	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13089799	0.86[EUR][1000 genomes]
rs13090348	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1370124	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17051783	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17661242	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17712228	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2033703	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2082992	0.85[AMR][1000 genomes]
rs2082993	0.85[AMR][1000 genomes]
rs2217938	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2241785	0.86[EUR][1000 genomes]
rs2304512	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2306430	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs2306431	0.84[AMR][1000 genomes]
rs2356261	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3749317	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3792408	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3804766	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3828395	0.86[EUR][1000 genomes]
rs4687553	0.82[AMR][1000 genomes]
rs4687601	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4687610	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4687656	0.82[AMR][1000 genomes]
rs4687731	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4687777	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4687803	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs4687811	0.90[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4687812	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4687813	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4974096	0.84[AMR][1000 genomes]
rs4974098	0.82[AMR][1000 genomes]
rs56239081	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs57027950	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs57047724	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs57603251	0.84[AMR][1000 genomes]
rs57831708	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs58059174	0.83[AMR][1000 genomes]
rs58568178	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58836277	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs59563413	0.86[EUR][1000 genomes]
rs59838596	0.86[EUR][1000 genomes]
rs60606339	0.83[AMR][1000 genomes]
rs61419317	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72945713	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs73834252	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73834253	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs73834254	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs73834258	0.83[AMR][1000 genomes]
rs73837435	0.82[AFR][1000 genomes]
rs73837438	0.82[AFR][1000 genomes]
rs73837439	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs73837442	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73837443	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9872991	0.85[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	nsv1014464	chr3:51220151-51909780	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:51458200-51489400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:51458200-51515000	Weak transcription	Fetal Brain Male	brain
3	chr3:51458400-51500200	Weak transcription	Psoas Muscle	Psoas
4	chr3:51458800-51503800	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr3:51467800-51482000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr3:51467800-51502000	Weak transcription	HMEC	breast
7	chr3:51467800-51524000	Weak transcription	Small Intestine	intestine
8	chr3:51470600-51498400	Weak transcription	Colon Smooth Muscle	Colon
9	chr3:51471600-51479000	Weak transcription	Stomach Mucosa	stomach
10	chr3:51472000-51498000	Weak transcription	NHEK	skin
11	chr3:51474200-51497600	Weak transcription	Ovary	ovary
12	chr3:51475800-51484400	Weak transcription	A549	lung
13	chr3:51475800-51495800	Weak transcription	Fetal Kidney	kidney
14	chr3:51475800-51496200	Weak transcription	Spleen	Spleen
15	chr3:51475800-51498600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr3:51475800-51499200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr3:51475800-51500400	Weak transcription	K562	blood
18	chr3:51476000-51479000	Weak transcription	Esophagus	oesophagus
19	chr3:51476000-51479400	Weak transcription	Primary T cells from cord blood	blood
20	chr3:51476000-51479400	Weak transcription	Colonic Mucosa	Colon
21	chr3:51476000-51479600	Weak transcription	Right Ventricle	heart
22	chr3:51476000-51480400	Weak transcription	Brain Anterior Caudate	brain
23	chr3:51476000-51481600	Weak transcription	Rectal Smooth Muscle	rectum
24	chr3:51476000-51481600	Weak transcription	HepG2	liver
25	chr3:51476000-51482000	Weak transcription	NH-A	brain
26	chr3:51476000-51482800	Weak transcription	GM12878-XiMat	blood
27	chr3:51476000-51483200	Weak transcription	NHLF	lung
28	chr3:51476000-51483800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr3:51476000-51484600	Weak transcription	Fetal Lung	lung
30	chr3:51476000-51484600	Weak transcription	HSMM	muscle
31	chr3:51476000-51488200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr3:51476000-51489200	Weak transcription	Thymus	Thymus
33	chr3:51476000-51489400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr3:51476000-51489600	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr3:51476000-51490000	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr3:51476000-51490000	Weak transcription	HUES6 Cell Line	embryonic stem cell
37	chr3:51476000-51495800	Weak transcription	Brain Angular Gyrus	brain
38	chr3:51476000-51496200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr3:51476000-51496200	Weak transcription	Left Ventricle	heart
40	chr3:51476000-51496200	Weak transcription	Pancreas	Pancrea
41	chr3:51476000-51496200	Weak transcription	HUVEC	blood vessel
42	chr3:51476000-51497000	Weak transcription	NHDF-Ad	bronchial
43	chr3:51476000-51497200	Weak transcription	Hela-S3	cervix
44	chr3:51476000-51497400	Weak transcription	Brain Substantia Nigra	brain
45	chr3:51476000-51497600	Weak transcription	Aorta	Aorta
46	chr3:51476000-51497600	Weak transcription	Gastric	stomach
47	chr3:51476000-51498600	Weak transcription	Brain Cingulate Gyrus	brain
48	chr3:51476000-51499800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr3:51476000-51506000	Weak transcription	Brain Inferior Temporal Lobe	brain
50	chr3:51476200-51480400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links