Variant report

Variant	rs1546543
Chromosome Location	chr11:9900894-9900895
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10500710	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10500711	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10500713	0.86[YRI][hapmap]
rs10500714	0.86[JPT][hapmap];0.86[YRI][hapmap]
rs11820989	0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs16907215	0.85[JPT][hapmap];0.86[YRI][hapmap]
rs16907238	0.85[JPT][hapmap];0.84[YRI][hapmap]
rs16907241	0.86[JPT][hapmap];0.86[YRI][hapmap]
rs16907248	0.85[JPT][hapmap];0.86[YRI][hapmap]
rs171493	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1996062	0.85[JPT][hapmap]
rs360162	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs360163	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs360166	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs360168	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs360169	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs4463836	0.85[JPT][hapmap];0.85[YRI][hapmap]
rs4542406	0.85[JPT][hapmap];0.86[YRI][hapmap]
rs57321195	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60701769	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61876913	0.94[ASN][1000 genomes]
rs938163	0.87[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 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	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
3	esv2762895	chr11:9849511-9954549	Flanking Active TSS Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9878400-9916200	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr11:9878800-9952200	Weak transcription	Aorta	Aorta
3	chr11:9880200-9913200	Weak transcription	Monocytes-CD14+_RO01746	blood
4	chr11:9880600-9914800	Weak transcription	Placenta	Placenta
5	chr11:9880800-9902200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr11:9882400-9929600	Weak transcription	Primary T cells from cord blood	blood
7	chr11:9884800-9905400	Weak transcription	NHLF	lung
8	chr11:9885800-9905600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr11:9890600-9915200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr11:9891400-9916800	Weak transcription	Primary B cells from cord blood	blood
11	chr11:9891600-9902000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr11:9891800-9916600	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr11:9892200-9914600	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr11:9892400-9914400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr11:9892400-9914600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr11:9892400-9921200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr11:9894000-9910600	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr11:9894200-9915200	Weak transcription	Fetal Muscle Trunk	muscle
19	chr11:9894400-9903200	Weak transcription	A549	lung
20	chr11:9894400-9907400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr11:9894400-9916600	Weak transcription	Primary hematopoietic stem cells	blood
22	chr11:9894400-9978600	Weak transcription	Left Ventricle	heart
23	chr11:9897000-9915000	Weak transcription	HSMMtube	muscle
24	chr11:9897200-9902400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr11:9897400-9909000	Weak transcription	Psoas Muscle	Psoas
26	chr11:9897800-9903200	Weak transcription	Fetal Lung	lung
27	chr11:9897800-9910000	Weak transcription	Fetal Kidney	kidney
28	chr11:9898200-9903000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr11:9898200-9914800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr11:9898200-9917000	Weak transcription	Stomach Smooth Muscle	stomach
31	chr11:9898400-9913800	Weak transcription	Fetal Stomach	stomach
32	chr11:9898600-9914800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
33	chr11:9898800-9915200	Weak transcription	Fetal Intestine Small	intestine
34	chr11:9899400-9915000	Weak transcription	Liver	Liver
35	chr11:9900000-9903600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr11:9900400-9901600	Enhancers	Ovary	ovary
37	chr11:9900600-9901000	Weak transcription	NHDF-Ad	bronchial
38	chr11:9900600-9901200	Enhancers	H1 Cell Line	embryonic stem cell
39	chr11:9900600-9903200	Weak transcription	Primary monocytes fromperipheralblood	blood
40	chr11:9900600-9915000	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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