Variant report

Variant	rs12092400
Chromosome Location	chr1:103612149-103612150
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11164695	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11164696	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11164697	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12071049	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12072150	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12072377	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12077063	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12082434	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12091319	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes]
rs17127546	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17127554	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6663789	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6663996	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6672387	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6675454	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6676021	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6676144	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6690594	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7525222	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7536894	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7537925	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes]
rs7546530	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7548104	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv522922	chr1:103305021-103764640	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv830893	chr1:103458498-103635579	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv931600	chr1:103548397-104161031	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv498007	chr1:103573857-104107589	Genic enhancers Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv947301	chr1:103609727-103612757	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:103610200-103612600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr1:103610600-103612400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr1:103611000-103613200	Enhancers	HSMM	muscle
4	chr1:103611200-103612400	Enhancers	Dnd41	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links