Variant report

Variant	rs2058618
Chromosome Location	chr2:39888710-39888711
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10170462	0.96[CEU][hapmap];0.88[EUR][1000 genomes]
rs10177801	0.89[EUR][1000 genomes]
rs10186346	0.96[CEU][hapmap];0.84[TSI][hapmap];0.88[EUR][1000 genomes]
rs10208929	0.89[EUR][1000 genomes]
rs11124689	0.89[EUR][1000 genomes]
rs12613210	0.87[EUR][1000 genomes]
rs12712652	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12989245	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13384364	0.94[EUR][1000 genomes]
rs13405084	0.95[EUR][1000 genomes]
rs13409487	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1548870	0.89[EUR][1000 genomes]
rs1548871	0.89[EUR][1000 genomes]
rs1861244	0.96[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.82[LWK][hapmap];0.98[TSI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2041736	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2215956	0.89[EUR][1000 genomes]
rs2540200	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2540247	0.96[CEU][hapmap];0.80[JPT][hapmap];0.90[EUR][1000 genomes]
rs2540248	0.95[EUR][1000 genomes]
rs2540249	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2540250	0.93[EUR][1000 genomes]
rs2540251	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2540252	0.95[EUR][1000 genomes]
rs2540255	0.95[CEU][hapmap];0.93[TSI][hapmap];0.97[EUR][1000 genomes]
rs2716682	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2716683	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2716684	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2716686	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2716687	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2716688	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2716690	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2716691	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2716692	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2716693	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2716694	0.96[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];0.84[TSI][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2716719	0.88[EUR][1000 genomes]
rs2716720	0.89[EUR][1000 genomes]
rs2716732	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2716737	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2716738	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35791480	0.86[EUR][1000 genomes]
rs4670952	0.96[EUR][1000 genomes]
rs4670954	0.88[EUR][1000 genomes]
rs6707177	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6711206	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6736442	0.89[EUR][1000 genomes]
rs6748628	0.88[EUR][1000 genomes]
rs917964	0.96[CEU][hapmap];0.97[EUR][1000 genomes]
rs949812	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.82[YRI][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs949813	0.96[CEU][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873889	chr2:39830183-39950482	Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv833870	chr2:39837022-40026024	Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:39885600-39893600	Weak transcription	Fetal Brain Male	brain
2	chr2:39887200-39889400	Enhancers	HSMM	muscle
3	chr2:39887200-39890000	Enhancers	HSMMtube	muscle
4	chr2:39887800-39889800	Enhancers	NHLF	lung
5	chr2:39888000-39889600	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr2:39888200-39888800	Enhancers	H9 Cell Line	embryonic stem cell
7	chr2:39888200-39888800	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr2:39888200-39889400	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr2:39888200-39889400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
10	chr2:39888400-39889600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr2:39888400-39892400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr2:39888600-39888800	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr2:39888600-39889800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr2:39888600-39891200	Weak transcription	Fetal Brain Female	brain
15	chr2:39888600-39892000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr2:39888600-39892400	Weak transcription	Brain Angular Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links