Variant report

Variant	rs4539107
Chromosome Location	chr1:215390579-215390580
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10494997	0.87[EUR][1000 genomes]
rs10779654	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10779655	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10864162	0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10864163	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10864164	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11120522	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11120528	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11120531	0.89[EUR][1000 genomes]
rs11120540	0.87[EUR][1000 genomes]
rs11811604	0.83[EUR][1000 genomes]
rs12026152	0.89[EUR][1000 genomes]
rs12080135	0.93[CEU][hapmap];0.82[JPT][hapmap];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12131712	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12142076	0.87[EUR][1000 genomes]
rs12567503	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1339399	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1361342	0.87[EUR][1000 genomes]
rs1416651	0.86[EUR][1000 genomes]
rs1416656	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2202679	0.87[EUR][1000 genomes]
rs4113098	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4281301	0.84[EUR][1000 genomes]
rs4360503	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4375236	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4633261	0.88[EUR][1000 genomes]
rs4655280	0.85[EUR][1000 genomes]
rs6664253	0.93[EUR][1000 genomes]
rs6671986	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6674923	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6704340	0.93[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap]
rs7512197	0.87[EUR][1000 genomes]
rs7516344	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7547867	0.97[EUR][1000 genomes];0.92[ASN][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	nsv873169	chr1:215264486-215453286	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	Chromatin interactive region miRNA target site	n/a	inside rSNPs	diseases
2	nsv873170	chr1:215367248-215440975	Weak transcription Genic enhancers Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region miRNA target site	n/a	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:215380600-215408000	Weak transcription	Osteobl	bone
2	chr1:215384800-215391200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr1:215388600-215408200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr1:215389200-215401400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr1:215389400-215393400	Weak transcription	NHDF-Ad	bronchial
6	chr1:215390000-215391000	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr1:215390200-215391000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr1:215390400-215390800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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