Variant report

Variant	rs1228938
Chromosome Location	chr7:84121549-84121550
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1029541	0.96[EUR][1000 genomes]
rs1228859	0.84[CEU][hapmap]
rs1228860	0.86[CEU][hapmap]
rs1228898	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1228909	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1228912	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1228913	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1228915	0.97[EUR][1000 genomes]
rs1228916	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1228919	0.99[EUR][1000 genomes]
rs1228933	0.96[EUR][1000 genomes]
rs1228937	0.97[EUR][1000 genomes]
rs1228939	0.95[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1228943	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1228944	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1228945	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1228947	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1228948	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1228949	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1228950	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1228952	0.80[EUR][1000 genomes]
rs1228953	0.80[EUR][1000 genomes]
rs1228954	0.80[EUR][1000 genomes]
rs1228958	0.80[EUR][1000 genomes]
rs1228959	0.80[EUR][1000 genomes]
rs1228961	0.80[EUR][1000 genomes]
rs1228965	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1228966	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1234538	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1235295	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13223991	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1634614	0.80[EUR][1000 genomes]
rs1715510	0.80[EUR][1000 genomes]
rs2079352	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2527528	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2706902	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2706907	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3094908	0.97[EUR][1000 genomes]
rs757747	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529344	chr7:83714286-84592857	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	esv2754468	chr7:83851249-84166749	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv534431	chr7:84001059-84138511	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv949446	chr7:84003501-84763823	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
5	nsv888634	chr7:84086502-84196258	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv888635	chr7:84086502-84344258	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv888636	chr7:84117594-84334498	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:84114000-84130600	Weak transcription	Rectal Smooth Muscle	rectum
2	chr7:84118400-84121600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr7:84119600-84122200	Active TSS	NHDF-Ad	bronchial
4	chr7:84120000-84121800	Active TSS	Adipose Nuclei	Adipose
5	chr7:84120000-84121800	Active TSS	Fetal Muscle Leg	muscle
6	chr7:84120000-84122200	Active TSS	Pancreatic Islets	Pancreatic Islet
7	chr7:84120000-84122200	Active TSS	Fetal Muscle Trunk	muscle
8	chr7:84120600-84121600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr7:84120800-84121600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr7:84121000-84122000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links