Variant report

Variant	rs1028952
Chromosome Location	chr3:67615208-67615209
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs12486198	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs13069557	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs13085475	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17046618	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17046620	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1928565	0.86[CHB][hapmap]
rs2250952	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2634727	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2772452	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2772453	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2772456	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35739416	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4856790	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4856791	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60133628	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6787983	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6794288	0.88[EUR][1000 genomes]
rs6794298	0.88[EUR][1000 genomes]
rs7621788	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7622020	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7628362	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7629697	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7636059	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7636075	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7643495	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9680952	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9682288	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9682933	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv470638	chr3:67367341-67814738	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv460700	chr3:67393629-67712970	Genic enhancers Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv590560	chr3:67393629-67712970	Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv1012416	chr3:67546244-67615531	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv590561	chr3:67548852-67690626	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	esv3359258	chr3:67589615-67828274	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:67560600-67620800	Weak transcription	Esophagus	oesophagus
2	chr3:67578200-67634600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr3:67579200-67620600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr3:67579400-67623000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr3:67579400-67633800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr3:67579400-67657600	Weak transcription	Pancreas	Pancrea
7	chr3:67580800-67620200	Weak transcription	GM12878-XiMat	blood
8	chr3:67582200-67637000	Weak transcription	Rectal Smooth Muscle	rectum
9	chr3:67582400-67620400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr3:67587000-67620200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr3:67587400-67628000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr3:67591400-67620200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr3:67594000-67620600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr3:67594000-67631000	Weak transcription	K562	blood
15	chr3:67595000-67639400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr3:67596400-67629000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr3:67598000-67644200	Weak transcription	NHLF	lung
18	chr3:67598200-67618400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr3:67598800-67616400	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr3:67599600-67620800	Weak transcription	Dnd41	blood
21	chr3:67599600-67621000	Weak transcription	Fetal Muscle Leg	muscle
22	chr3:67599600-67629000	Weak transcription	Right Ventricle	heart
23	chr3:67600200-67628800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr3:67600400-67620600	Weak transcription	HMEC	breast
25	chr3:67600400-67624400	Weak transcription	Adipose Nuclei	Adipose
26	chr3:67600800-67621000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr3:67601800-67673000	Weak transcription	Fetal Heart	heart
28	chr3:67602200-67619800	Weak transcription	Fetal Intestine Small	intestine
29	chr3:67602200-67620800	Weak transcription	Fetal Stomach	stomach
30	chr3:67602200-67644200	Weak transcription	Gastric	stomach
31	chr3:67602200-67654800	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr3:67602200-67655400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr3:67602200-67656000	Weak transcription	Fetal Muscle Trunk	muscle
34	chr3:67602400-67619400	Weak transcription	Lung	lung
35	chr3:67602400-67624000	Weak transcription	Psoas Muscle	Psoas
36	chr3:67602400-67646200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr3:67602600-67635600	Weak transcription	Aorta	Aorta
38	chr3:67607000-67626200	Weak transcription	Muscle Satellite Cultured Cells	--
39	chr3:67609200-67616000	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr3:67609200-67618000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr3:67609200-67618600	Weak transcription	Monocytes-CD14+_RO01746	blood
42	chr3:67609200-67620200	Weak transcription	Primary B cells from peripheral blood	blood
43	chr3:67609200-67620600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr3:67609200-67621200	Weak transcription	Rectal Mucosa Donor 29	rectum
45	chr3:67609200-67624400	Weak transcription	Left Ventricle	heart
46	chr3:67609200-67637000	Weak transcription	Ovary	ovary
47	chr3:67609400-67620600	Weak transcription	Cortex derived primary cultured neurospheres	brain
48	chr3:67609400-67644000	Weak transcription	NHDF-Ad	bronchial
49	chr3:67609600-67616000	Weak transcription	HSMM	muscle
50	chr3:67609800-67620800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links