Variant report

Variant	rs1438098
Chromosome Location	chr20:1681929-1681930
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11696890	0.94[EUR][1000 genomes]
rs11697150	0.94[EUR][1000 genomes]
rs11906069	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1438099	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1438101	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1595459	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1595460	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4602278	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56198409	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59719880	0.97[EUR][1000 genomes]
rs6105572	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6105573	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6105574	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6105579	0.97[EUR][1000 genomes]
rs6111024	1.00[EUR][1000 genomes]
rs6111031	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6111034	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6111041	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6111045	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6111046	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6111054	1.00[EUR][1000 genomes]
rs6111055	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6111058	1.00[EUR][1000 genomes]
rs6111080	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs7266946	0.97[EUR][1000 genomes]
rs73069323	0.97[EUR][1000 genomes]
rs73069324	0.99[EUR][1000 genomes]
rs73069326	0.99[EUR][1000 genomes]
rs73085052	0.92[EUR][1000 genomes]
rs735993	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs735994	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs743082	1.00[CEU][hapmap];0.88[TSI][hapmap];0.97[EUR][1000 genomes]
rs8117600	0.92[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	nsv585206	chr20:1386473-1714362	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv912596	chr20:1486637-1877150	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
3	nsv1057036	chr20:1493425-1869281	Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
4	nsv912597	chr20:1500506-1877150	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
5	nsv833894	chr20:1519433-1753366	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
6	nsv531473	chr20:1532476-1864506	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
7	nsv1063429	chr20:1679052-1706969	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:1678400-1682000	Weak transcription	Primary T helper cells fromperipheralblood	blood
2	chr20:1678400-1682800	Weak transcription	Primary T cells from cord blood	blood
3	chr20:1678400-1688200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr20:1681200-1682200	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr20:1681200-1682800	Enhancers	Monocytes-CD14+_RO01746	blood
6	chr20:1681400-1682000	Enhancers	Hela-S3	cervix
7	chr20:1681400-1682400	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr20:1681400-1683800	Enhancers	Primary monocytes fromperipheralblood	blood
9	chr20:1681600-1682000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
10	chr20:1681600-1682400	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr20:1681800-1682400	Enhancers	H9 Cell Line	embryonic stem cell

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