Variant report

Variant	rs2952881
Chromosome Location	chr2:23960980-23960981
allele	A/C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs2952861	0.80[AMR][1000 genomes]
rs2952871	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2968939	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]

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	nsv1003958	chr2:23809969-23973456	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv527636	chr2:23854896-24034178	Strong transcription ZNF genes & repeats Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv1004502	chr2:23907961-24026668	Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:23922600-23973600	Weak transcription	NH-A	brain
2	chr2:23930000-23968200	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr2:23932000-23976200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr2:23936200-23968000	Weak transcription	Ovary	ovary
5	chr2:23944400-23968400	Weak transcription	Stomach Smooth Muscle	stomach
6	chr2:23944600-23961600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr2:23944800-23968000	Weak transcription	Pancreas	Pancrea
8	chr2:23944800-23979800	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr2:23944800-24001800	Weak transcription	Esophagus	oesophagus
10	chr2:23944800-24007400	Weak transcription	Aorta	Aorta
11	chr2:23944800-24010600	Weak transcription	Right Ventricle	heart
12	chr2:23945000-23961400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr2:23945000-23968800	Weak transcription	Brain Anterior Caudate	brain
14	chr2:23945600-23974200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr2:23946200-23968000	Weak transcription	Left Ventricle	heart
16	chr2:23947000-23975600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr2:23947000-23979800	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr2:23947200-23976200	Weak transcription	Fetal Lung	lung
19	chr2:23947800-23968800	Weak transcription	K562	blood
20	chr2:23948200-23974400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr2:23948400-23976400	Weak transcription	A549	lung
22	chr2:23948400-23993400	Weak transcription	Fetal Kidney	kidney
23	chr2:23948400-23994200	Weak transcription	Fetal Brain Female	brain
24	chr2:23948600-23968600	Weak transcription	GM12878-XiMat	blood
25	chr2:23948800-23973800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr2:23949200-23968600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr2:23949400-23968400	Weak transcription	Colon Smooth Muscle	Colon
28	chr2:23949400-23968600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr2:23949600-23974200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr2:23949800-23968000	Weak transcription	Adipose Nuclei	Adipose
31	chr2:23949800-23973200	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr2:23949800-23973200	Weak transcription	Rectal Mucosa Donor 29	rectum
33	chr2:23950400-23971600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr2:23950800-23976400	Weak transcription	Brain Hippocampus Middle	brain
35	chr2:23951200-23975400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr2:23955200-23968000	Weak transcription	Psoas Muscle	Psoas
37	chr2:23956200-23973200	Weak transcription	Primary B cells from peripheral blood	blood
38	chr2:23956400-23967800	Weak transcription	Fetal Muscle Trunk	muscle
39	chr2:23957600-23973200	Weak transcription	Dnd41	blood
40	chr2:23957600-23975600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr2:23958200-23968600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr2:23958600-23968200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr2:23958800-23968400	Weak transcription	Liver	Liver
44	chr2:23958800-23973000	Weak transcription	Duodenum Mucosa	Duodenum
45	chr2:23958800-23973200	Weak transcription	Primary T cells fromperipheralblood	blood
46	chr2:23959200-23973000	Weak transcription	Primary B cells from cord blood	blood
47	chr2:23959400-23968400	Weak transcription	HSMMtube	muscle
48	chr2:23959600-23973600	Weak transcription	Primary T helper cells PMA-I stimulated	--
49	chr2:23959800-23965800	Weak transcription	Primary T cells from cord blood	blood
50	chr2:23959800-23974400	Weak transcription	Primary hematopoietic stem cells short term culture	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links