Variant report

Variant	rs10038945
Chromosome Location	chr5:74883486-74883487
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10036682	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10041470	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10055011	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10059022	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10061689	0.80[AFR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10067900	0.89[EUR][1000 genomes]
rs10074747	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10076819	0.85[AFR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10077427	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10078671	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10474437	0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12173076	0.85[EUR][1000 genomes]
rs13360099	0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13361353	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1469051	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1553234	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1820049	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1909719	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2287710	0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs253410	0.83[ASN][1000 genomes]
rs28408106	0.89[EUR][1000 genomes]
rs28612248	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28668361	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28874007	0.82[AFR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34339	0.83[ASN][1000 genomes]
rs34342	0.83[ASN][1000 genomes]
rs34343	0.83[ASN][1000 genomes]
rs3804231	0.89[EUR][1000 genomes]
rs4703675	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4704213	0.89[EUR][1000 genomes]
rs4704229	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56859362	0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs5744544	0.90[EUR][1000 genomes]
rs5744545	0.89[EUR][1000 genomes]
rs5744636	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs5744667	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs5744704	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs5744709	0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs5744712	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57907925	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58519566	0.89[EUR][1000 genomes]
rs58841453	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6891560	0.89[AFR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72633964	0.89[EUR][1000 genomes]
rs72633965	0.89[EUR][1000 genomes]
rs72633966	0.82[EUR][1000 genomes]
rs72633967	0.91[EUR][1000 genomes]
rs72633968	0.88[EUR][1000 genomes]
rs72633969	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72633970	0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72633971	0.83[AFR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72633972	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72633973	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72633974	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72633975	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72633976	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72633977	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7356633	0.89[EUR][1000 genomes]
rs7726478	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs904743	0.87[AFR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9293652	0.89[EUR][1000 genomes]
rs9293654	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9293655	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs979182	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882193	chr5:74656175-74917862	ZNF genes & repeats Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv882194	chr5:74656175-74946455	Strong transcription Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv882195	chr5:74678937-74896798	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv882196	chr5:74678937-74917862	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
5	nsv882197	chr5:74692776-74946455	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
6	nsv882198	chr5:74736065-74896798	Strong transcription Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
7	nsv882199	chr5:74757758-74946455	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
8	nsv1027368	chr5:74759999-75663712	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
9	nsv882201	chr5:74787310-74890618	Weak transcription Flanking Active TSS Genic enhancers Strong transcription Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	11 gene(s)	inside rSNPs	diseases
10	nsv882202	chr5:74808417-74946455	Strong transcription Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
11	nsv518475	chr5:74863041-75411804	Strong transcription Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:74818200-74897400	Weak transcription	Thymus	Thymus
2	chr5:74822800-74896000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr5:74833400-74906800	Weak transcription	Brain Substantia Nigra	brain
4	chr5:74839400-74897400	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr5:74841200-74899400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr5:74850200-74896200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr5:74862200-74897800	Weak transcription	Brain Germinal Matrix	brain
8	chr5:74862600-74887600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr5:74862600-74888800	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr5:74862600-74897200	Weak transcription	Lung	lung
11	chr5:74862800-74888600	Weak transcription	Fetal Intestine Small	intestine
12	chr5:74862800-74888800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr5:74862800-74897400	Weak transcription	Pancreas	Pancrea
14	chr5:74862800-74897400	Weak transcription	Spleen	Spleen
15	chr5:74862800-74897600	Weak transcription	Gastric	stomach
16	chr5:74862800-74907200	Weak transcription	Esophagus	oesophagus
17	chr5:74863000-74886400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr5:74863000-74896200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
19	chr5:74863600-74905800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr5:74863800-74883800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr5:74863800-74906800	Weak transcription	Rectal Smooth Muscle	rectum
22	chr5:74864000-74884200	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr5:74864000-74889000	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr5:74864000-74897400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr5:74864000-74897400	Weak transcription	NHEK	skin
26	chr5:74864000-74899600	Weak transcription	Hela-S3	cervix
27	chr5:74864000-74907000	Weak transcription	Psoas Muscle	Psoas
28	chr5:74864200-74884600	Weak transcription	Fetal Heart	heart
29	chr5:74864200-74886400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
30	chr5:74865800-74906800	Weak transcription	Colonic Mucosa	Colon
31	chr5:74867600-74907200	Weak transcription	Small Intestine	intestine
32	chr5:74869400-74893400	Strong transcription	Monocytes-CD14+_RO01746	blood
33	chr5:74871000-74886400	Weak transcription	Muscle Satellite Cultured Cells	--
34	chr5:74871400-74889200	Weak transcription	Left Ventricle	heart
35	chr5:74871400-74889400	Weak transcription	Brain Cingulate Gyrus	brain
36	chr5:74871400-74897400	Weak transcription	Aorta	Aorta
37	chr5:74871400-74897400	Weak transcription	Brain Angular Gyrus	brain
38	chr5:74871400-74897400	Weak transcription	Brain Hippocampus Middle	brain
39	chr5:74871400-74897400	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr5:74871800-74900600	Strong transcription	Primary monocytes fromperipheralblood	blood
41	chr5:74872200-74893000	Strong transcription	Primary T helper cells fromperipheralblood	blood
42	chr5:74872400-74884000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr5:74872400-74898400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr5:74873600-74889800	Weak transcription	Colon Smooth Muscle	Colon
45	chr5:74873600-74907000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr5:74873800-74889400	Weak transcription	Rectal Mucosa Donor 29	rectum
47	chr5:74873800-74899200	Weak transcription	K562	blood
48	chr5:74873800-74901000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
49	chr5:74874600-74886000	Weak transcription	Rectal Mucosa Donor 31	rectum
50	chr5:74874600-74897400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links