Variant report

Variant	rs2122920
Chromosome Location	chr4:151644875-151644876
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 102 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs10003857	0.92[AFR][1000 genomes]
rs10008077	1.00[ASN][1000 genomes]
rs10012460	0.98[AFR][1000 genomes]
rs10025414	1.00[CEU][hapmap];0.81[YRI][hapmap]
rs1148642	1.00[ASN][1000 genomes]
rs1148655	0.83[AFR][1000 genomes]
rs1201202	1.00[ASN][1000 genomes]
rs12499833	0.95[AFR][1000 genomes]
rs12648430	0.97[AFR][1000 genomes]
rs1451634	0.95[AFR][1000 genomes]
rs17027030	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17027034	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.93[LWK][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17027100	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17027158	1.00[ASN][1000 genomes]
rs17440394	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1782360	1.00[CEU][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes]
rs2218899	0.94[AFR][1000 genomes]
rs294532	1.00[CEU][hapmap]
rs35879351	1.00[ASN][1000 genomes]
rs4355367	1.00[CEU][hapmap]
rs4431210	1.00[CEU][hapmap]
rs4533751	1.00[CEU][hapmap]
rs4696220	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[LWK][hapmap];0.96[MKK][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes]
rs4696537	1.00[CEU][hapmap]
rs57218449	1.00[ASN][1000 genomes]
rs57518605	1.00[ASN][1000 genomes]
rs58328072	1.00[ASN][1000 genomes]
rs59572961	1.00[ASN][1000 genomes]
rs60102523	1.00[ASN][1000 genomes]
rs60391819	1.00[ASN][1000 genomes]
rs61258128	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61371689	1.00[ASN][1000 genomes]
rs61668839	1.00[ASN][1000 genomes]
rs62344564	1.00[ASN][1000 genomes]
rs62344565	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62344567	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62344568	0.84[EUR][1000 genomes]
rs62344569	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62344571	1.00[ASN][1000 genomes]
rs62344572	1.00[ASN][1000 genomes]
rs62344573	1.00[ASN][1000 genomes]
rs62344578	1.00[ASN][1000 genomes]
rs62344579	1.00[ASN][1000 genomes]
rs62344582	1.00[ASN][1000 genomes]
rs62344596	1.00[ASN][1000 genomes]
rs62344597	1.00[ASN][1000 genomes]
rs62344598	1.00[ASN][1000 genomes]
rs62344605	1.00[ASN][1000 genomes]
rs62346260	1.00[ASN][1000 genomes]
rs62346265	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346268	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346294	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346295	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346297	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346301	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346303	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346304	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346305	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346306	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346307	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346308	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346309	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346311	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346337	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346338	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346341	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346345	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62346346	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346348	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346349	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346350	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62346351	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6535743	1.00[ASN][1000 genomes]
rs6535744	1.00[ASN][1000 genomes]
rs6535749	0.98[AFR][1000 genomes]
rs6817726	0.90[AFR][1000 genomes]
rs6819868	1.00[ASN][1000 genomes]
rs6820819	0.92[AFR][1000 genomes]
rs6831200	0.94[AFR][1000 genomes]
rs6836017	1.00[ASW][hapmap];1.00[CEU][hapmap];0.93[LWK][hapmap];0.95[MKK][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes]
rs6838286	0.90[AFR][1000 genomes]
rs6847725	1.00[CEU][hapmap]
rs6852035	0.89[AFR][1000 genomes]
rs716474	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73859222	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73859291	1.00[ASN][1000 genomes]
rs73859295	1.00[ASN][1000 genomes]
rs7656796	0.90[AFR][1000 genomes]
rs7663641	0.95[AFR][1000 genomes]
rs7665652	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7677186	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs971640	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880256	chr4:151126725-151751369	Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv817540	chr4:151228965-151858609	Strong transcription Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv869051	chr4:151347901-151737781	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1024820	chr4:151364078-151943561	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
5	nsv1032070	chr4:151514664-151775259	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv830113	chr4:151538184-151691942	Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	nsv1029861	chr4:151556384-151720601	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv1034948	chr4:151590115-152202687	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
9	nsv537302	chr4:151590115-152202687	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
10	nsv530159	chr4:151624865-152203910	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 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	chr4:151595000-151654800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr4:151636600-151647000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr4:151636600-151647400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr4:151637000-151645000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr4:151639400-151645000	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr4:151639600-151671400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr4:151640600-151652000	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr4:151642600-151646600	Weak transcription	GM12878-XiMat	blood
9	chr4:151642600-151647200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr4:151642800-151645200	Enhancers	Left Ventricle	heart
11	chr4:151643000-151645600	Enhancers	Pancreas	Pancrea
12	chr4:151643000-151646000	Enhancers	Fetal Intestine Large	intestine
13	chr4:151643000-151647600	Strong transcription	Primary B cells from cord blood	blood
14	chr4:151643400-151647600	Strong transcription	Primary T cells from cord blood	blood
15	chr4:151643600-151645400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr4:151643600-151645400	Enhancers	Liver	Liver
17	chr4:151643600-151645400	Enhancers	Right Ventricle	heart
18	chr4:151643600-151645600	Enhancers	Duodenum Mucosa	Duodenum
19	chr4:151643600-151654200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr4:151643800-151645000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr4:151643800-151645000	Enhancers	Fetal Heart	heart
22	chr4:151643800-151645200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
23	chr4:151643800-151645200	Enhancers	Lung	lung
24	chr4:151643800-151645200	Enhancers	Stomach Mucosa	stomach
25	chr4:151643800-151645200	Enhancers	NHEK	skin
26	chr4:151643800-151645400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
27	chr4:151643800-151645400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr4:151643800-151645400	Enhancers	Colonic Mucosa	Colon
29	chr4:151643800-151645400	Enhancers	Esophagus	oesophagus
30	chr4:151643800-151645400	Enhancers	Psoas Muscle	Psoas
31	chr4:151643800-151645400	Enhancers	Right Atrium	heart
32	chr4:151643800-151645400	Enhancers	Sigmoid Colon	Sigmoid Colon
33	chr4:151643800-151645400	Enhancers	Skeletal Muscle Male	skeletal muscle
34	chr4:151644000-151645200	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr4:151644000-151645200	Enhancers	Spleen	Spleen
36	chr4:151644000-151645400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr4:151644000-151645400	Enhancers	Gastric	stomach
38	chr4:151644000-151645600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chr4:151644000-151645600	Strong transcription	Thymus	Thymus
40	chr4:151644000-151646400	Weak transcription	Brain Anterior Caudate	brain
41	chr4:151644000-151646400	Weak transcription	Brain Inferior Temporal Lobe	brain
42	chr4:151644200-151645600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
43	chr4:151644200-151645600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr4:151644200-151645800	Strong transcription	Primary T helper cells PMA-I stimulated	--
45	chr4:151644200-151646600	Strong transcription	Primary hematopoietic stem cells	blood
46	chr4:151644200-151647600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
47	chr4:151644200-151650600	Weak transcription	Stomach Smooth Muscle	stomach
48	chr4:151644200-151657400	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr4:151644400-151645000	Enhancers	HepG2	liver
50	chr4:151644400-151645200	Genic enhancers	Primary hematopoietic stem cells short term culture	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links