Variant report

Variant	rs7423329
Chromosome Location	chr2:189394596-189394597
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 159 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:155)

rs_ID	r²[population]
rs10188279	0.82[YRI][hapmap]
rs10207510	0.82[YRI][hapmap]
rs10432433	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs10804021	1.00[CEU][hapmap]
rs10804022	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs10931353	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs10931357	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs10931365	1.00[YRI][hapmap];0.98[AFR][1000 genomes]
rs10931368	0.80[EUR][1000 genomes]
rs11678035	0.80[EUR][1000 genomes]
rs11678294	0.87[EUR][1000 genomes]
rs11679949	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs11683340	0.87[EUR][1000 genomes]
rs11683909	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs11683969	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs11685643	1.00[CEU][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs11688482	0.80[EUR][1000 genomes]
rs11689113	0.93[EUR][1000 genomes]
rs11693105	1.00[CEU][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11694636	0.93[EUR][1000 genomes]
rs11695177	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs11695316	1.00[CEU][hapmap]
rs11904835	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs12151605	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs12475894	1.00[CEU][hapmap]
rs12476413	1.00[CEU][hapmap]
rs12997039	1.00[CEU][hapmap]
rs13025659	1.00[CEU][hapmap]
rs13386959	1.00[CEU][hapmap]
rs13392080	1.00[MEX][hapmap]
rs13392850	1.00[CEU][hapmap]
rs13393057	1.00[CEU][hapmap]
rs13393442	1.00[CEU][hapmap];0.82[YRI][hapmap];0.93[EUR][1000 genomes]
rs13396968	1.00[CEU][hapmap]
rs13397653	1.00[CEU][hapmap]
rs13399616	0.91[YRI][hapmap];0.80[AFR][1000 genomes]
rs13403508	1.00[MEX][hapmap];0.84[YRI][hapmap];0.82[AFR][1000 genomes]
rs13411541	0.83[AFR][1000 genomes]
rs13412448	1.00[CEU][hapmap]
rs13414327	1.00[CEU][hapmap]
rs13414813	1.00[MEX][hapmap]
rs13418031	1.00[CEU][hapmap]
rs13426900	0.83[AFR][1000 genomes]
rs1507551	1.00[CEU][hapmap]
rs34323074	0.80[EUR][1000 genomes]
rs4453658	1.00[CEU][hapmap]
rs4667230	0.96[AFR][1000 genomes]
rs4667231	1.00[CEU][hapmap]
rs4667232	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs57067423	0.93[EUR][1000 genomes]
rs57210291	0.80[EUR][1000 genomes]
rs59668663	0.93[EUR][1000 genomes]
rs60894296	0.80[EUR][1000 genomes]
rs6434282	0.91[YRI][hapmap];0.83[AFR][1000 genomes]
rs6434283	0.91[YRI][hapmap];0.83[AFR][1000 genomes]
rs6434284	0.90[AFR][1000 genomes]
rs6434287	0.84[ASW][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs6707212	1.00[CEU][hapmap]
rs6709557	1.00[CEU][hapmap]
rs6736780	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs6744275	1.00[CEU][hapmap]
rs6744742	0.91[YRI][hapmap];0.83[AFR][1000 genomes]
rs6756504	1.00[CEU][hapmap]
rs6761280	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs72896824	0.93[EUR][1000 genomes]
rs72896833	0.93[EUR][1000 genomes]
rs72896844	0.93[EUR][1000 genomes]
rs72896851	0.93[EUR][1000 genomes]
rs72896856	0.93[EUR][1000 genomes]
rs72896869	0.80[EUR][1000 genomes]
rs72896876	0.80[EUR][1000 genomes]
rs72896879	0.80[EUR][1000 genomes]
rs72896898	0.80[EUR][1000 genomes]
rs72898830	0.80[EUR][1000 genomes]
rs72898840	0.80[EUR][1000 genomes]
rs72898843	0.80[EUR][1000 genomes]
rs72898858	0.80[EUR][1000 genomes]
rs72898866	0.80[EUR][1000 genomes]
rs72898876	0.80[EUR][1000 genomes]
rs72898887	0.80[EUR][1000 genomes]
rs72898898	0.80[EUR][1000 genomes]
rs72900830	0.80[EUR][1000 genomes]
rs72900842	0.80[EUR][1000 genomes]
rs72900845	0.80[EUR][1000 genomes]
rs72900848	0.80[EUR][1000 genomes]
rs72900849	0.80[EUR][1000 genomes]
rs72900870	0.80[EUR][1000 genomes]
rs72900874	0.80[EUR][1000 genomes]
rs72900893	0.80[EUR][1000 genomes]
rs72900899	0.80[EUR][1000 genomes]
rs72902608	0.80[EUR][1000 genomes]
rs72902659	0.80[EUR][1000 genomes]
rs72905569	0.93[EUR][1000 genomes]
rs72905578	0.93[EUR][1000 genomes]
rs72905586	0.93[EUR][1000 genomes]
rs72905596	0.93[EUR][1000 genomes]
rs72905601	0.93[EUR][1000 genomes]
rs72907612	0.93[EUR][1000 genomes]
rs72907614	0.93[EUR][1000 genomes]
rs72907632	0.93[EUR][1000 genomes]
rs72907664	0.93[EUR][1000 genomes]
rs72907686	0.93[EUR][1000 genomes]
rs72907691	0.93[EUR][1000 genomes]
rs72907697	0.93[EUR][1000 genomes]
rs72909509	0.93[EUR][1000 genomes]
rs72909519	0.93[EUR][1000 genomes]
rs72909524	0.93[EUR][1000 genomes]
rs72909525	0.93[EUR][1000 genomes]
rs72909527	0.93[EUR][1000 genomes]
rs72909531	0.93[EUR][1000 genomes]
rs72909536	0.86[EUR][1000 genomes]
rs72909549	0.93[EUR][1000 genomes]
rs72909551	0.93[EUR][1000 genomes]
rs72909552	0.93[EUR][1000 genomes]
rs72909553	0.93[EUR][1000 genomes]
rs72909559	0.93[EUR][1000 genomes]
rs72909566	0.93[EUR][1000 genomes]
rs72909568	0.93[EUR][1000 genomes]
rs72909571	0.93[EUR][1000 genomes]
rs72909573	0.93[EUR][1000 genomes]
rs72909575	0.93[EUR][1000 genomes]
rs72909576	0.93[EUR][1000 genomes]
rs72909577	0.93[EUR][1000 genomes]
rs72909579	0.93[EUR][1000 genomes]
rs72909590	0.93[EUR][1000 genomes]
rs72909594	0.93[EUR][1000 genomes]
rs72909595	0.93[EUR][1000 genomes]
rs72909598	0.93[EUR][1000 genomes]
rs72911406	0.93[EUR][1000 genomes]
rs72911432	0.93[EUR][1000 genomes]
rs72911439	0.93[EUR][1000 genomes]
rs72911445	0.93[EUR][1000 genomes]
rs72911448	0.93[EUR][1000 genomes]
rs72911463	0.93[EUR][1000 genomes]
rs72911465	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72911476	0.93[EUR][1000 genomes]
rs72911497	0.93[EUR][1000 genomes]
rs72911499	0.93[EUR][1000 genomes]
rs72911501	0.93[EUR][1000 genomes]
rs72913327	0.93[EUR][1000 genomes]
rs72913360	0.93[EUR][1000 genomes]
rs72913365	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7419798	1.00[CEU][hapmap]
rs7420808	1.00[CEU][hapmap]
rs7421510	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs7423378	1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs7423554	1.00[CEU][hapmap]
rs7579593	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs7580259	1.00[YRI][hapmap];0.98[AFR][1000 genomes]
rs7582643	1.00[CEU][hapmap]
rs7587596	1.00[CEU][hapmap]
rs7592288	1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs7593824	0.84[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs7602180	1.00[CEU][hapmap]
rs9288154	0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv584055	chr2:189266823-189493686	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv834489	chr2:189329027-189494224	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv1003974	chr2:189331760-189827814	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv533110	chr2:189354436-189462552	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:189329200-189399000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr2:189382800-189394800	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr2:189383200-189422000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr2:189383200-189423800	Weak transcription	Placenta	Placenta
5	chr2:189384800-189395000	Weak transcription	Gastric	stomach
6	chr2:189384800-189442200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr2:189385400-189396400	Weak transcription	Psoas Muscle	Psoas
8	chr2:189387800-189404000	Weak transcription	A549	lung
9	chr2:189388200-189434000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr2:189391800-189395600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr2:189392200-189395600	Weak transcription	HSMM	muscle
12	chr2:189392600-189397600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr2:189392600-189400600	Weak transcription	Ovary	ovary
14	chr2:189392600-189406800	Weak transcription	HUVEC	blood vessel
15	chr2:189392800-189394600	Weak transcription	Stomach Smooth Muscle	stomach
16	chr2:189393000-189396000	Strong transcription	HUES64 Cell Line	embryonic stem cell
17	chr2:189393600-189394600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr2:189393600-189395000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
19	chr2:189393600-189397800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr2:189394000-189395000	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr2:189394000-189395000	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
22	chr2:189394000-189395000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr2:189394000-189397400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr2:189394200-189394600	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr2:189394200-189394600	ZNF genes & repeats	Aorta	Aorta
26	chr2:189394200-189394800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr2:189394200-189394800	ZNF genes & repeats	NHLF	lung
28	chr2:189394200-189395200	Strong transcription	Fetal Lung	lung
29	chr2:189394200-189395400	Strong transcription	H1 Cell Line	embryonic stem cell
30	chr2:189394400-189394800	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr2:189394400-189395000	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links