Variant report

Variant	rs7598137
Chromosome Location	chr2:172249847-172249848
allele	A/G
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:70)

rs_ID	r²[population]
rs10445722	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10515933	1.00[ASW][hapmap];0.84[CHB][hapmap];0.97[GIH][hapmap];0.89[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs12151641	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs1558936	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs17220419	1.00[ASW][hapmap];0.86[CHB][hapmap];0.95[GIH][hapmap];0.89[JPT][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17220440	0.88[AFR][1000 genomes]
rs17220608	0.82[CHB][hapmap];0.89[JPT][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs17220657	0.84[CHB][hapmap];0.89[JPT][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs17220699	0.81[CEU][hapmap];0.81[JPT][hapmap];0.87[YRI][hapmap];0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs17220734	1.00[ASW][hapmap];0.84[CHB][hapmap];0.97[GIH][hapmap];0.89[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs17221346	0.87[GIH][hapmap]
rs17221367	0.83[JPT][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs17221402	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs17285541	0.85[TSI][hapmap]
rs17285688	0.92[CHB][hapmap];0.84[CHD][hapmap];0.81[JPT][hapmap]
rs17286415	1.00[ASW][hapmap];0.97[GIH][hapmap];0.89[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs17286660	0.84[CHB][hapmap];0.83[JPT][hapmap];0.87[YRI][hapmap];0.88[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs1981788	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs2356781	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs36112363	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs3731981	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs3731982	0.97[GIH][hapmap];0.90[MEX][hapmap];0.86[TSI][hapmap]
rs3731983	1.00[ASW][hapmap];0.97[GIH][hapmap];0.89[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs3731985	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs3795998	1.00[ASW][hapmap];0.97[GIH][hapmap];0.84[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs3821084	1.00[ASW][hapmap];0.97[GIH][hapmap];0.84[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs4417688	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs4458186	1.00[ASW][hapmap];0.84[CHB][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];0.80[TSI][hapmap];0.83[YRI][hapmap];0.89[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs4496302	0.81[AMR][1000 genomes]
rs4522571	1.00[ASW][hapmap];0.92[CHB][hapmap];0.97[GIH][hapmap];0.89[JPT][hapmap];0.81[LWK][hapmap];0.86[TSI][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4668385	0.81[AMR][1000 genomes]
rs4668386	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs4668387	1.00[ASW][hapmap];0.97[GIH][hapmap];0.84[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs56410960	0.85[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs57099324	0.82[AMR][1000 genomes]
rs60439518	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs62181352	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62183467	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62183468	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62183470	0.85[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs62183471	0.85[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs62183472	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62183492	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs62183493	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62183494	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62183495	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62183497	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs62183498	0.81[ASN][1000 genomes]
rs62183499	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs62183502	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs62183503	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs62183506	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs62183507	0.85[AFR][1000 genomes]
rs62183539	0.90[AFR][1000 genomes]
rs6433290	0.92[CHB][hapmap];0.89[JPT][hapmap];0.93[YRI][hapmap];0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6433291	0.87[GIH][hapmap]
rs6433292	0.83[JPT][hapmap];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6713612	0.83[JPT][hapmap];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6720250	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6740733	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6741806	0.86[CHB][hapmap];0.89[JPT][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6751956	0.87[GIH][hapmap]
rs7562674	0.89[ASW][hapmap];1.00[LWK][hapmap];0.85[TSI][hapmap];0.87[YRI][hapmap];0.87[AFR][1000 genomes]
rs7568037	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7576894	0.85[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9678149	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs9678164	0.85[AMR][1000 genomes]
rs9679537	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs9789572	1.00[ASW][hapmap];0.97[GIH][hapmap];0.84[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs9789596	1.00[YRI][hapmap];0.90[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3382346	chr2:172062677-172363892	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:172222200-172289600	Weak transcription	Gastric	stomach
2	chr2:172232000-172253200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr2:172237800-172254400	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr2:172238000-172272400	Weak transcription	Fetal Intestine Large	intestine
5	chr2:172238800-172272400	Weak transcription	Primary T cells from cord blood	blood
6	chr2:172239000-172250000	Weak transcription	Fetal Stomach	stomach
7	chr2:172239200-172250400	Weak transcription	Fetal Heart	heart
8	chr2:172239200-172250600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr2:172239200-172257400	Weak transcription	K562	blood
10	chr2:172240600-172251000	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr2:172243600-172253400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr2:172243800-172257800	Weak transcription	Primary hematopoietic stem cells	blood
13	chr2:172244000-172257800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr2:172245600-172251800	Weak transcription	Dnd41	blood
15	chr2:172246400-172250200	Weak transcription	Primary B cells from cord blood	blood
16	chr2:172246800-172255400	Weak transcription	Primary B cells from peripheral blood	blood
17	chr2:172247200-172254200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr2:172248000-172266000	Weak transcription	Left Ventricle	heart
19	chr2:172248200-172257600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr2:172248200-172258000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr2:172248400-172250000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr2:172248400-172251000	Weak transcription	HSMMtube	muscle
23	chr2:172248400-172257000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr2:172248400-172258000	Weak transcription	NHEK	skin
25	chr2:172248400-172258400	Weak transcription	HSMM	muscle
26	chr2:172248400-172259600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr2:172248400-172259600	Weak transcription	Hela-S3	cervix
28	chr2:172248600-172250000	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr2:172248600-172250000	Weak transcription	Primary neutrophils fromperipheralblood	blood
30	chr2:172248600-172250200	Weak transcription	HUES64 Cell Line	embryonic stem cell
31	chr2:172248600-172251400	Weak transcription	H1 Cell Line	embryonic stem cell
32	chr2:172248600-172265400	Weak transcription	H9 Cell Line	embryonic stem cell
33	chr2:172248800-172250000	Weak transcription	GM12878-XiMat	blood
34	chr2:172248800-172250200	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr2:172248800-172250200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
36	chr2:172248800-172251600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
37	chr2:172248800-172258000	Weak transcription	A549	lung
38	chr2:172249000-172250200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr2:172249000-172251800	Weak transcription	HUVEC	blood vessel
40	chr2:172249000-172258400	Weak transcription	HepG2	liver
41	chr2:172249000-172259200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr2:172249800-172250200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
43	chr2:172249800-172250600	Enhancers	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links