Variant report

Variant	rs61897167
Chromosome Location	chr11:3963132-3963133
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10430939	0.91[ASN][1000 genomes]
rs10500591	0.96[ASN][1000 genomes]
rs11030251	0.92[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11030286	0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11030326	1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11030327	1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11030366	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11030417	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11030418	0.92[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11030453	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11030478	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11030479	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11030481	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11030484	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11030485	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11030486	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11030697	0.85[ASN][1000 genomes]
rs11525342	0.85[ASN][1000 genomes]
rs11529865	0.85[ASN][1000 genomes]
rs12222250	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12224469	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1372803	0.82[ASN][1000 genomes]
rs16929477	0.82[ASN][1000 genomes]
rs16929480	0.82[ASN][1000 genomes]
rs16929488	0.83[ASN][1000 genomes]
rs16929492	0.85[ASN][1000 genomes]
rs16929529	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs16929531	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs16929538	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs16929540	0.89[ASN][1000 genomes]
rs16929542	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs16929546	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs16929611	0.97[ASN][1000 genomes]
rs16929616	1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs16929653	0.84[ASN][1000 genomes]
rs1822286	0.81[ASN][1000 genomes]
rs2167563	0.93[ASN][1000 genomes]
rs55679086	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs55978228	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs56126231	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59195871	0.91[ASN][1000 genomes]
rs59242983	0.86[ASN][1000 genomes]
rs60930198	0.84[ASN][1000 genomes]
rs61897162	0.92[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs61897163	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs61897164	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs61897166	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61897170	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61897171	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61897194	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61897195	0.96[ASN][1000 genomes]
rs61897201	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61897202	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs61897203	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs61897206	0.81[ASN][1000 genomes]
rs61897234	0.84[ASN][1000 genomes]
rs61897237	0.82[ASN][1000 genomes]
rs61897238	0.81[ASN][1000 genomes]
rs6578423	0.95[ASN][1000 genomes]
rs723779	0.91[ASN][1000 genomes]
rs72851736	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs750526	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7941743	0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049560	chr11:3678259-3980746	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	nsv540907	chr11:3678259-3980746	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Flanking 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 miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv1052744	chr11:3739162-4017601	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv1047025	chr11:3750969-4017601	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv1046065	chr11:3808818-4049150	Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
6	nsv540909	chr11:3808818-4049150	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
7	nsv869701	chr11:3879297-3973762	Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
8	nsv896895	chr11:3942001-3972236	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:3950400-3972200	Weak transcription	Fetal Muscle Trunk	muscle
2	chr11:3951200-3965400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr11:3951200-3967600	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr11:3951400-3963400	Weak transcription	A549	lung
5	chr11:3951400-3963600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr11:3951600-3963400	Weak transcription	Brain Hippocampus Middle	brain
7	chr11:3952000-3963400	Weak transcription	Pancreas	Pancrea
8	chr11:3954000-3963800	Enhancers	Primary T helper cells PMA-I stimulated	--
9	chr11:3954800-3963200	Weak transcription	Liver	Liver
10	chr11:3955400-3963400	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr11:3955800-3963200	Weak transcription	Primary hematopoietic stem cells	blood
12	chr11:3955800-3963200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
13	chr11:3955800-3963400	Weak transcription	Primary monocytes fromperipheralblood	blood
14	chr11:3956200-3963400	Weak transcription	K562	blood
15	chr11:3956200-3964000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr11:3956600-3963400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr11:3957000-3963400	Weak transcription	Colon Smooth Muscle	Colon
18	chr11:3958000-3963400	Weak transcription	Spleen	Spleen
19	chr11:3958400-3963400	Weak transcription	Stomach Smooth Muscle	stomach
20	chr11:3958800-3968000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
21	chr11:3959600-3963800	Weak transcription	Fetal Lung	lung
22	chr11:3960000-3963400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
23	chr11:3960000-3967600	Enhancers	Skeletal Muscle Male	skeletal muscle
24	chr11:3960200-3967600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
25	chr11:3961000-3964200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr11:3961200-3963600	Weak transcription	Stomach Mucosa	stomach
27	chr11:3961200-3964600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr11:3961200-4002000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr11:3961400-3963400	Enhancers	Primary T helper naive cells from peripheral blood	blood
30	chr11:3961400-3963400	Weak transcription	Small Intestine	intestine
31	chr11:3961400-3963600	Enhancers	Primary T cells from cord blood	blood
32	chr11:3961400-3964400	Enhancers	Right Atrium	heart
33	chr11:3961400-3964800	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr11:3961400-3965200	Enhancers	Sigmoid Colon	Sigmoid Colon
35	chr11:3961400-3968600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr11:3961400-3968600	Enhancers	Skeletal Muscle Female	skeletal muscle
37	chr11:3961400-3969200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr11:3961600-3963400	Weak transcription	Fetal Muscle Leg	muscle
39	chr11:3961600-3963600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr11:3961600-3963800	Weak transcription	Rectal Smooth Muscle	rectum
41	chr11:3961600-3963800	Weak transcription	HMEC	breast
42	chr11:3961600-3966400	Enhancers	NHDF-Ad	bronchial
43	chr11:3961600-3967600	Weak transcription	Brain Angular Gyrus	brain
44	chr11:3961600-3967800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr11:3961600-3968000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr11:3961600-3968400	Weak transcription	NHEK	skin
47	chr11:3961600-3975200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr11:3961800-3963400	Enhancers	Primary T killer memory cells from peripheral blood	blood
49	chr11:3961800-3963600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr11:3961800-3963600	Enhancers	Dnd41	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links