Variant report

Variant	rs10840302
Chromosome Location	chr11:9797808-9797809
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1045634	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10770061	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10840300	1.00[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10840301	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10840304	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10840307	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11042494	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11042495	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042496	0.89[CEU][hapmap];0.95[EUR][1000 genomes]
rs11042497	0.80[EUR][1000 genomes]
rs11042498	0.94[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12786198	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1496475	0.84[JPT][hapmap]
rs1532422	0.84[JPT][hapmap]
rs16907071	0.94[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs2878800	0.84[JPT][hapmap]
rs360148	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs360149	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3751001	0.95[ASN][1000 genomes]
rs3763862	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs3829252	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4910500	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4910501	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4910502	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4910503	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4910505	0.96[CEU][hapmap];0.96[EUR][1000 genomes]
rs55934784	0.97[ASN][1000 genomes]
rs7102804	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7103902	0.82[YRI][hapmap]
rs7105203	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7113055	0.83[JPT][hapmap]
rs7113459	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7114514	0.84[JPT][hapmap]
rs7120754	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7124706	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7925875	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7936721	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9795085	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9795121	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9795122	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9795123	0.93[AMR][1000 genomes];0.99[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	nsv933855	chr11:9645441-10130519	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking 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 miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv1053369	chr11:9647837-9876054	Genic enhancers Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv553468	chr11:9667828-9827871	Weak transcription Genic enhancers Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv896987	chr11:9759918-9885849	Strong transcription Enhancers Genic enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
5	esv3384280	chr11:9766350-9911228	Flanking Bivalent TSS/Enh Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9780600-9813200	Weak transcription	Small Intestine	intestine
2	chr11:9781400-9800800	Weak transcription	Fetal Brain Female	brain
3	chr11:9781600-9798200	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr11:9781600-9801000	Weak transcription	Primary T cells from cord blood	blood
5	chr11:9781600-9809000	Weak transcription	Fetal Brain Male	brain
6	chr11:9781800-9799200	Weak transcription	Primary B cells from cord blood	blood
7	chr11:9781800-9799200	Weak transcription	Primary hematopoietic stem cells	blood
8	chr11:9781800-9801200	Weak transcription	Duodenum Mucosa	Duodenum
9	chr11:9781800-9801600	Weak transcription	Primary B cells from peripheral blood	blood
10	chr11:9782000-9798000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr11:9782400-9799400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr11:9784000-9801200	Weak transcription	Gastric	stomach
13	chr11:9787400-9799000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr11:9787400-9801000	Weak transcription	Aorta	Aorta
15	chr11:9787600-9799200	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr11:9787600-9799200	Weak transcription	Fetal Lung	lung
17	chr11:9787800-9801000	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr11:9787800-9805200	Weak transcription	Colonic Mucosa	Colon
19	chr11:9788000-9801000	Weak transcription	Lung	lung
20	chr11:9788200-9801000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr11:9788600-9801600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr11:9788800-9799000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr11:9789200-9801000	Weak transcription	Spleen	Spleen
24	chr11:9789400-9798000	Weak transcription	Placenta	Placenta
25	chr11:9790200-9799200	Weak transcription	Adipose Nuclei	Adipose
26	chr11:9791000-9801000	Weak transcription	Primary neutrophils fromperipheralblood	blood
27	chr11:9792000-9801200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr11:9792200-9801000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
29	chr11:9792600-9798800	Weak transcription	Brain Germinal Matrix	brain
30	chr11:9792600-9799000	Weak transcription	Fetal Muscle Trunk	muscle
31	chr11:9793800-9801000	Weak transcription	Primary T cells fromperipheralblood	blood
32	chr11:9794200-9801000	Weak transcription	Fetal Intestine Small	intestine
33	chr11:9795200-9798000	Enhancers	NHLF	lung
34	chr11:9795200-9798600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr11:9795200-9812800	Strong transcription	Monocytes-CD14+_RO01746	blood
36	chr11:9795400-9798200	Enhancers	Osteobl	bone
37	chr11:9795400-9798800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr11:9795400-9798800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr11:9795600-9799000	Weak transcription	Fetal Stomach	stomach
40	chr11:9795800-9799000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr11:9796000-9798200	Enhancers	ES-I3 Cell Line	embryonic stem cell
42	chr11:9796200-9799600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
43	chr11:9796400-9798400	Flanking Active TSS	HSMMtube	muscle
44	chr11:9796400-9799000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr11:9796400-9799200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr11:9796400-9799200	Weak transcription	Fetal Kidney	kidney
47	chr11:9796400-9799600	Enhancers	HUES48 Cell Line	embryonic stem cell
48	chr11:9796400-9799600	Enhancers	HUES64 Cell Line	embryonic stem cell
49	chr11:9796400-9799600	Enhancers	iPS-15b Cell Line	embryonic stem cell
50	chr11:9796600-9798200	Enhancers	Fetal Heart	heart

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