Variant report

Variant	rs11884659
Chromosome Location	chr2:153022473-153022474
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:153020735..153022717-chr2:153573174..153575342,2	K562	blood:
2	chr2:153021217..153023520-chr2:153573174..153575280,2	K562	blood:
3	chr2:153020830..153022927-chr2:153028823..153031292,2	MCF-7	breast:
4	chr2:153021796..153023898-chr2:153029429..153032358,3	K562	blood:

Variant related genes	Relation type
ENSG00000115145	Chromatin interaction
ENSG00000177917	Chromatin interaction
ENSG00000196504	Chromatin interaction

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10177222	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10187630	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10469642	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10497095	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10497097	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10803946	0.85[AMR][1000 genomes]
rs10930939	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10930959	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10930967	0.87[AMR][1000 genomes]
rs1133478	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11694120	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11893841	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12328733	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12468532	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12472524	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12476550	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12612557	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12613984	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12615156	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12621378	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12622092	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12623355	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12693270	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12693271	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13003423	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13424583	0.86[EUR][1000 genomes]
rs2002247	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28785043	0.83[AMR][1000 genomes]
rs34233450	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35155943	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35717822	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3768648	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3768649	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3768651	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3806464	0.82[EUR][1000 genomes]
rs4255959	0.84[EUR][1000 genomes]
rs4368329	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4473376	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4505521	0.84[EUR][1000 genomes]
rs4611639	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4664080	0.81[ASN][1000 genomes]
rs4664084	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4664085	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4664089	0.81[AMR][1000 genomes]
rs4664530	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4664531	0.90[ASN][1000 genomes]
rs4664532	0.84[ASN][1000 genomes]
rs4664535	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4664537	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62176474	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62176476	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62176478	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62176479	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6650779	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6720552	0.81[EUR][1000 genomes]
rs71417204	0.84[ASN][1000 genomes]
rs7420277	0.82[EUR][1000 genomes]
rs7572616	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7588906	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8179814	0.82[AMR][1000 genomes]
rs9917198	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1005746	chr2:152361972-153059840	Strong transcription Weak transcription Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv535984	chr2:152361972-153059840	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv875287	chr2:152714680-153110573	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv875288	chr2:152716628-153183646	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
5	nsv875289	chr2:152720030-153183646	Enhancers Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
6	esv1847028	chr2:152863856-153045036	Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
7	nsv1004308	chr2:152980087-153154534	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
8	nsv535985	chr2:152980087-153154534	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
9	nsv459740	chr2:152986041-153045036	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
10	nsv583316	chr2:152986041-153045036	Bivalent/Poised TSS ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
11	esv3693434	chr2:152998467-153208713	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:152981800-153024800	Weak transcription	Brain Substantia Nigra	brain
2	chr2:153000200-153031000	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr2:153002200-153023600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr2:153002800-153030400	Weak transcription	Thymus	Thymus
5	chr2:153003200-153028400	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr2:153003600-153028000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr2:153004200-153023800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr2:153004400-153023600	Weak transcription	HSMM	muscle
9	chr2:153004400-153023600	Weak transcription	NHDF-Ad	bronchial
10	chr2:153005200-153028000	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr2:153005200-153028200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr2:153005400-153023600	Weak transcription	Duodenum Mucosa	Duodenum
13	chr2:153007200-153028200	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr2:153007400-153023600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr2:153008800-153028800	Weak transcription	Esophagus	oesophagus
16	chr2:153013800-153023000	Weak transcription	Brain Angular Gyrus	brain
17	chr2:153014000-153022600	Weak transcription	A549	lung
18	chr2:153014000-153028400	Weak transcription	Right Ventricle	heart
19	chr2:153014200-153023000	Weak transcription	Primary T helper cells PMA-I stimulated	--
20	chr2:153014200-153023000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr2:153014200-153023000	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr2:153014200-153023000	Weak transcription	Fetal Lung	lung
23	chr2:153014200-153023600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr2:153014200-153023800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr2:153014200-153023800	Weak transcription	Brain Anterior Caudate	brain
26	chr2:153014200-153024000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr2:153014200-153028400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr2:153014200-153028400	Weak transcription	Primary neutrophils fromperipheralblood	blood
29	chr2:153014400-153023000	Weak transcription	Primary B cells from cord blood	blood
30	chr2:153014400-153023000	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr2:153014400-153023000	Weak transcription	Monocytes-CD14+_RO01746	blood
32	chr2:153014400-153023200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr2:153015400-153030200	Weak transcription	Primary T cells from cord blood	blood
34	chr2:153017000-153030200	Weak transcription	Fetal Stomach	stomach
35	chr2:153018600-153023400	Weak transcription	HepG2	liver
36	chr2:153019000-153022600	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr2:153019800-153023200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr2:153020600-153023000	Enhancers	Stomach Mucosa	stomach
39	chr2:153021000-153022800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr2:153021200-153023000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr2:153021200-153023200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr2:153021200-153030600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr2:153021400-153022800	Enhancers	Pancreas	Pancrea
44	chr2:153021400-153023400	Enhancers	Primary hematopoietic stem cells	blood
45	chr2:153021400-153023600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr2:153021400-153025000	Enhancers	Ovary	ovary
47	chr2:153021400-153028200	Weak transcription	Brain Inferior Temporal Lobe	brain
48	chr2:153021600-153022800	Enhancers	Gastric	stomach
49	chr2:153021600-153023000	Weak transcription	Primary monocytes fromperipheralblood	blood
50	chr2:153021800-153022600	Strong transcription	Fetal Intestine Small	intestine

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