Variant report

Variant	rs10829068
Chromosome Location	chr10:27092508-27092509
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10159978	0.93[CEU][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10764642	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10764644	0.93[AFR][1000 genomes]
rs10764645	0.85[AFR][1000 genomes]
rs10764652	0.80[CEU][hapmap]
rs10829055	0.87[CEU][hapmap];0.95[YRI][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10829056	0.93[CEU][hapmap];0.95[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10829057	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10829059	1.00[CEU][hapmap];0.95[YRI][hapmap];0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10829061	1.00[CEU][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10829062	1.00[CEU][hapmap];0.95[YRI][hapmap];0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10829069	1.00[CEU][hapmap];0.92[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10829072	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10829073	1.00[CEU][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10829074	0.93[CEU][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10829079	0.92[CEU][hapmap];0.94[YRI][hapmap];0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10829083	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10829085	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10829088	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10829097	0.80[CEU][hapmap]
rs10829099	0.91[YRI][hapmap]
rs10829101	0.80[CEU][hapmap]
rs10829107	0.92[CEU][hapmap];0.91[YRI][hapmap];0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11015262	0.86[CEU][hapmap];0.95[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11015266	1.00[CEU][hapmap];0.91[YRI][hapmap];0.80[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs11015267	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs11015276	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs11015283	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11015298	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11015300	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11015308	1.00[EUR][1000 genomes]
rs11015313	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11015340	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11015343	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12243481	0.95[YRI][hapmap];0.93[AFR][1000 genomes]
rs12247684	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12256219	0.88[AFR][1000 genomes]
rs12265625	0.93[CEU][hapmap];0.96[YRI][hapmap];0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12267091	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12358409	1.00[CEU][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1408530	1.00[CEU][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16927341	0.92[CEU][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28538332	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7082503	0.93[CEU][hapmap];0.86[EUR][1000 genomes]
rs718827	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3415799	chr10:26929831-27233591	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv933544	chr10:27005220-27111998	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv831812	chr10:27061506-27234267	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv971858	chr10:27066006-27157708	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv947600	chr10:27090659-27093432	Enhancers Weak transcription Flanking Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27075000-27104600	Weak transcription	Esophagus	oesophagus
2	chr10:27082200-27105400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr10:27082600-27094000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr10:27083600-27094800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr10:27085600-27119000	Weak transcription	Fetal Lung	lung
6	chr10:27085800-27095600	Enhancers	Primary B cells from peripheral blood	blood
7	chr10:27086000-27093400	Weak transcription	Fetal Intestine Small	intestine
8	chr10:27086200-27096600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
9	chr10:27086600-27110400	Weak transcription	Fetal Intestine Large	intestine
10	chr10:27087000-27097000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr10:27087200-27094400	Weak transcription	Aorta	Aorta
12	chr10:27087200-27096800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
13	chr10:27088000-27096000	Weak transcription	Monocytes-CD14+_RO01746	blood
14	chr10:27088200-27093400	Weak transcription	Rectal Smooth Muscle	rectum
15	chr10:27088200-27100800	Weak transcription	Primary monocytes fromperipheralblood	blood
16	chr10:27088400-27096800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
17	chr10:27088600-27098800	Weak transcription	Pancreas	Pancrea
18	chr10:27089000-27095600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
19	chr10:27089800-27093000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr10:27090000-27093800	Enhancers	Dnd41	blood
21	chr10:27090000-27096400	Weak transcription	Fetal Stomach	stomach
22	chr10:27090200-27093600	Enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr10:27090200-27094000	Weak transcription	Right Atrium	heart
24	chr10:27090400-27093000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr10:27090400-27093000	Weak transcription	Fetal Thymus	thymus
26	chr10:27090400-27093000	Weak transcription	Left Ventricle	heart
27	chr10:27090400-27095200	Weak transcription	Lung	lung
28	chr10:27090400-27097400	Enhancers	Primary T helper cells fromperipheralblood	blood
29	chr10:27090600-27094000	Enhancers	Primary T cells from cord blood	blood
30	chr10:27090600-27096800	Enhancers	Primary T helper cells PMA-I stimulated	--
31	chr10:27090800-27092600	Enhancers	HUES48 Cell Line	embryonic stem cell
32	chr10:27091000-27092600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
33	chr10:27091200-27092600	Enhancers	ES-I3 Cell Line	embryonic stem cell
34	chr10:27091200-27092600	Enhancers	Primary T helper naive cells from peripheral blood	blood
35	chr10:27091400-27092600	Enhancers	iPS-15b Cell Line	embryonic stem cell
36	chr10:27091400-27092600	Enhancers	Liver	Liver
37	chr10:27091400-27092800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr10:27091400-27093400	Enhancers	Primary B cells from cord blood	blood
39	chr10:27091400-27093400	Enhancers	Sigmoid Colon	Sigmoid Colon
40	chr10:27091400-27095200	Enhancers	Duodenum Smooth Muscle	Duodenum
41	chr10:27091400-27095200	Enhancers	Pancreatic Islets	Pancreatic Islet
42	chr10:27091400-27095400	Enhancers	iPS-20b Cell Line	embryonic stem cell
43	chr10:27091400-27095600	Enhancers	HUES6 Cell Line	embryonic stem cell
44	chr10:27091400-27095600	Enhancers	HUES64 Cell Line	embryonic stem cell
45	chr10:27091400-27095800	Enhancers	Primary T killer memory cells from peripheral blood	blood
46	chr10:27091600-27092600	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr10:27091600-27092600	Enhancers	iPS-18 Cell Line	embryonic stem cell
48	chr10:27091600-27092600	Enhancers	HepG2	liver
49	chr10:27091600-27092600	Enhancers	NHEK	skin
50	chr10:27091600-27093200	Enhancers	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links