Variant report

Variant	rs12357289
Chromosome Location	chr10:22963683-22963684
allele	A/C
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:65)

rs_ID	r²[population]
rs10764339	1.00[CHB][hapmap]
rs10764344	1.00[CHB][hapmap]
rs10828323	1.00[CHB][hapmap]
rs10828324	1.00[CHB][hapmap]
rs10828325	0.83[CEU][hapmap];1.00[CHB][hapmap]
rs10828328	0.91[CEU][hapmap];1.00[CHB][hapmap];0.92[ASN][1000 genomes]
rs11013052	1.00[CHB][hapmap]
rs11013066	0.83[CEU][hapmap];1.00[CHB][hapmap]
rs11013067	0.83[CEU][hapmap];1.00[CHB][hapmap]
rs11013068	0.83[CEU][hapmap];1.00[CHB][hapmap]
rs11013077	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs11013082	0.83[CEU][hapmap];1.00[CHB][hapmap]
rs11013091	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs1171490	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs1171492	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs1171494	0.81[EUR][1000 genomes]
rs1171497	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs1171503	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs1171504	0.91[CEU][hapmap];1.00[CHB][hapmap];0.89[YRI][hapmap]
rs1171506	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs1171509	0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12246676	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs12253847	1.00[CHB][hapmap]
rs12354766	1.00[CHB][hapmap]
rs12356117	1.00[CHB][hapmap]
rs12357384	1.00[CHB][hapmap]
rs12357444	1.00[CHB][hapmap]
rs12358560	0.83[CEU][hapmap];1.00[CHB][hapmap]
rs12770214	1.00[CHB][hapmap]
rs12774725	0.83[CEU][hapmap];1.00[CHB][hapmap]
rs1343504	0.92[CEU][hapmap];1.00[CHB][hapmap];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1359641	0.93[YRI][hapmap]
rs1359643	0.88[YRI][hapmap]
rs1409393	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[YRI][hapmap]
rs1409395	0.91[CEU][hapmap];1.00[CHB][hapmap];0.88[YRI][hapmap]
rs1614387	0.87[CEU][hapmap];1.00[CHB][hapmap];0.80[EUR][1000 genomes]
rs1627549	0.88[YRI][hapmap]
rs16922592	1.00[YRI][hapmap]
rs1750748	0.88[CEU][hapmap];1.00[CHB][hapmap]
rs1750764	0.87[YRI][hapmap]
rs1750765	0.88[YRI][hapmap]
rs1750766	0.82[YRI][hapmap]
rs1750768	0.93[YRI][hapmap]
rs1750777	0.92[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap]
rs1778309	0.87[YRI][hapmap]
rs1778313	0.84[YRI][hapmap]
rs1778321	0.82[YRI][hapmap]
rs1778322	0.93[YRI][hapmap]
rs1778334	0.88[CEU][hapmap];1.00[CHB][hapmap]
rs1778335	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs1778338	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs1778339	0.92[CEU][hapmap];1.00[CHB][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs1778340	0.87[CEU][hapmap];1.00[CHB][hapmap];0.88[YRI][hapmap];0.82[EUR][1000 genomes]
rs1778342	0.88[CEU][hapmap]
rs1778345	0.88[CEU][hapmap];1.00[CHB][hapmap]
rs1778346	1.00[CHB][hapmap];0.87[YRI][hapmap]
rs1778347	0.87[CEU][hapmap];1.00[CHB][hapmap];0.88[YRI][hapmap];0.80[EUR][1000 genomes]
rs2031620	0.82[CHB][hapmap]
rs2559534	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs2798981	0.91[CEU][hapmap];1.00[CHB][hapmap];0.88[YRI][hapmap];0.81[EUR][1000 genomes]
rs7071306	1.00[CHB][hapmap]
rs7912132	0.82[CHB][hapmap]
rs7921549	1.00[CHB][hapmap]
rs943196	0.87[CEU][hapmap];0.82[CHB][hapmap]
rs943197	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1830947	chr10:22881196-23004381	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv831809	chr10:22918101-23069676	Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:22949000-22965000	Weak transcription	Right Atrium	heart
2	chr10:22949200-22969600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr10:22952000-22970200	Weak transcription	Esophagus	oesophagus
4	chr10:22952400-22970000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr10:22955800-22970200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr10:22956000-22970400	Weak transcription	NHLF	lung
7	chr10:22956200-22968200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
8	chr10:22956200-22970200	Weak transcription	Liver	Liver
9	chr10:22956800-22967000	Enhancers	Brain Cingulate Gyrus	brain
10	chr10:22956800-22971600	Weak transcription	Primary B cells from cord blood	blood
11	chr10:22958200-22965200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr10:22958200-22967200	Enhancers	Brain Anterior Caudate	brain
13	chr10:22958400-22972200	Enhancers	Primary T helper cells fromperipheralblood	blood
14	chr10:22958600-22971000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
15	chr10:22958600-22975400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
16	chr10:22958800-22968400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
17	chr10:22958800-22969800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr10:22958800-22969800	Weak transcription	Left Ventricle	heart
19	chr10:22959000-22964800	Enhancers	Primary T cells from cord blood	blood
20	chr10:22959000-22965000	Enhancers	Primary T helper cells PMA-I stimulated	--
21	chr10:22959000-22965200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr10:22959000-22968200	Enhancers	Primary T helper naive cells from peripheral blood	blood
23	chr10:22959200-22971600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
24	chr10:22959200-22971600	Weak transcription	Duodenum Mucosa	Duodenum
25	chr10:22959200-22980000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr10:22959400-22966800	Enhancers	Brain Hippocampus Middle	brain
27	chr10:22960000-22967600	Enhancers	Primary T cells fromperipheralblood	blood
28	chr10:22960000-22967600	Enhancers	Brain Substantia Nigra	brain
29	chr10:22960200-22965000	Enhancers	HUES64 Cell Line	embryonic stem cell
30	chr10:22960200-22967400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
31	chr10:22960600-22964200	Weak transcription	Small Intestine	intestine
32	chr10:22960600-22964800	Weak transcription	Thymus	Thymus
33	chr10:22960600-22969800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr10:22960600-22971400	Weak transcription	Right Ventricle	heart
35	chr10:22960800-22964400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr10:22961000-22963800	Enhancers	Primary hematopoietic stem cells short term culture	blood
37	chr10:22961200-22964000	Enhancers	Fetal Muscle Leg	muscle
38	chr10:22961200-22964000	Enhancers	HSMM	muscle
39	chr10:22961200-22965400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr10:22961400-22964600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr10:22961400-22966800	Enhancers	Brain Angular Gyrus	brain
42	chr10:22961600-22964200	Enhancers	HSMMtube	muscle
43	chr10:22961800-22964000	Enhancers	Primary B cells from peripheral blood	blood
44	chr10:22961800-22966600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr10:22961800-22979600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
46	chr10:22962000-22963800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr10:22962000-22964000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr10:22962000-22966600	Enhancers	Primary T killer memory cells from peripheral blood	blood
49	chr10:22962000-22969400	Weak transcription	Rectal Mucosa Donor 31	rectum
50	chr10:22962000-22969600	Weak transcription	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links