Variant report

Variant	rs4452202
Chromosome Location	chr2:47661535-47661536
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10175959	0.81[EUR][1000 genomes]
rs10209369	0.82[EUR][1000 genomes]
rs11125136	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11684661	0.86[EUR][1000 genomes]
rs11886591	0.86[EUR][1000 genomes]
rs11889077	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12712993	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1981927	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1981928	0.88[ASN][1000 genomes]
rs2081483	0.81[ASN][1000 genomes]
rs2081484	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2081485	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2162121	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2347794	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2347795	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3771272	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3771274	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3771275	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3771276	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3771281	0.81[EUR][1000 genomes]
rs3821227	0.80[EUR][1000 genomes]
rs4550716	0.82[EUR][1000 genomes]
rs4596025	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6544989	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6544990	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6704794	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6707467	0.90[EUR][1000 genomes]
rs6711675	0.80[EUR][1000 genomes]
rs6719539	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6720555	0.83[EUR][1000 genomes]
rs6724382	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6724876	0.87[ASN][1000 genomes]
rs6726691	0.89[ASN][1000 genomes]
rs6726832	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6729015	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6739590	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6741139	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6754473	0.81[EUR][1000 genomes]
rs6757035	0.82[ASN][1000 genomes]
rs6758327	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6759990	0.81[EUR][1000 genomes]
rs7575871	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7607076	0.89[ASN][1000 genomes]
rs7607312	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][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	nsv817517	chr2:46819371-47715140	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
2	nsv1004828	chr2:47056849-47814482	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
3	nsv531348	chr2:47433147-47827310	Flanking Bivalent TSS/Enh Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
4	nsv999576	chr2:47506116-47773960	Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
5	nsv527823	chr2:47645249-47709704	Genic enhancers Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:47631400-47697000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr2:47631400-47714400	Weak transcription	Right Ventricle	heart
3	chr2:47631800-47672000	Weak transcription	Pancreas	Pancrea
4	chr2:47631800-47696600	Weak transcription	Esophagus	oesophagus
5	chr2:47631800-47700000	Weak transcription	Colonic Mucosa	Colon
6	chr2:47631800-47704200	Weak transcription	Psoas Muscle	Psoas
7	chr2:47633000-47714000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr2:47643600-47703400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr2:47644800-47692000	Weak transcription	Fetal Brain Male	brain
10	chr2:47647400-47662800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr2:47648600-47668600	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr2:47652000-47666400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr2:47655600-47682800	Weak transcription	Stomach Mucosa	stomach
14	chr2:47657800-47664800	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr2:47658000-47670600	Weak transcription	Aorta	Aorta
16	chr2:47658000-47674800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr2:47658000-47690400	Weak transcription	NHEK	skin
18	chr2:47658000-47707000	Weak transcription	Colon Smooth Muscle	Colon
19	chr2:47658000-47714200	Weak transcription	Small Intestine	intestine
20	chr2:47658200-47663400	Weak transcription	A549	lung
21	chr2:47658200-47665200	Weak transcription	HMEC	breast
22	chr2:47658200-47665200	Weak transcription	K562	blood
23	chr2:47658200-47665400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr2:47658200-47668800	Weak transcription	Spleen	Spleen
25	chr2:47658200-47670600	Weak transcription	Brain Angular Gyrus	brain
26	chr2:47658200-47671200	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr2:47658200-47673000	Weak transcription	Primary hematopoietic stem cells	blood
28	chr2:47658200-47674800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr2:47658200-47690200	Weak transcription	Skeletal Muscle Female	skeletal muscle
30	chr2:47658200-47690400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
31	chr2:47658200-47690400	Weak transcription	Left Ventricle	heart
32	chr2:47658200-47690600	Weak transcription	Brain Anterior Caudate	brain
33	chr2:47658200-47691000	Weak transcription	Gastric	stomach
34	chr2:47658200-47692600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr2:47658200-47692600	Weak transcription	Rectal Smooth Muscle	rectum
36	chr2:47658200-47709200	Weak transcription	Brain Substantia Nigra	brain
37	chr2:47658200-47710400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
38	chr2:47658200-47713400	Weak transcription	Fetal Heart	heart
39	chr2:47658200-47714200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
40	chr2:47658200-47714800	Weak transcription	HSMMtube	muscle
41	chr2:47658200-47724800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr2:47658400-47663600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr2:47658400-47663800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr2:47658400-47663800	Weak transcription	GM12878-XiMat	blood
45	chr2:47658400-47664800	Weak transcription	Primary T cells from cord blood	blood
46	chr2:47658400-47664800	Weak transcription	Brain Hippocampus Middle	brain
47	chr2:47658400-47665000	Weak transcription	Primary B cells from peripheral blood	blood
48	chr2:47658400-47665000	Weak transcription	Duodenum Mucosa	Duodenum
49	chr2:47658400-47665200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr2:47658400-47665200	Weak transcription	Fetal Brain Female	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links