Variant report

Variant	rs11677754
Chromosome Location	chr2:142819834-142819835
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs1001629	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10803487	0.94[ASN][1000 genomes]
rs10928133	0.94[ASN][1000 genomes]
rs10928134	0.98[ASN][1000 genomes]
rs11688838	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11692364	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12105566	0.98[ASN][1000 genomes]
rs12105584	0.98[ASN][1000 genomes]
rs12618881	0.98[ASN][1000 genomes]
rs12619411	0.83[ASN][1000 genomes]
rs12621782	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12998297	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13000270	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13036224	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1349222	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1375603	1.00[ASN][1000 genomes]
rs1375616	0.91[ASN][1000 genomes]
rs1449475	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1449481	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1449485	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1449489	0.90[ASN][1000 genomes]
rs1449490	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1449494	0.91[ASN][1000 genomes]
rs1449495	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1449496	0.91[ASN][1000 genomes]
rs1449498	0.94[ASN][1000 genomes]
rs1449499	0.94[ASN][1000 genomes]
rs1449501	0.94[ASN][1000 genomes]
rs1449503	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1449504	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17824487	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1868543	0.90[ASN][1000 genomes]
rs1868544	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1900933	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1900934	0.98[ASN][1000 genomes]
rs2029142	0.91[ASN][1000 genomes]
rs2060592	0.91[ASN][1000 genomes]
rs2197910	1.00[ASN][1000 genomes]
rs2218734	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34392492	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4662219	0.80[ASN][1000 genomes]
rs4662370	0.98[ASN][1000 genomes]
rs4662373	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62155598	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62157626	0.91[ASN][1000 genomes]
rs62157627	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6744928	0.81[ASN][1000 genomes]
rs6754907	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7558803	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7586417	0.80[ASN][1000 genomes]
rs7598886	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7605112	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs993935	0.98[ASN][1000 genomes]
rs9941495	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9941695	0.98[ASN][1000 genomes]
rs997123	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530398	chr2:142474842-142843839	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv997274	chr2:142760393-143599193	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv526107	chr2:142768518-142884248	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv875253	chr2:142805006-142855291	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:142811600-142821400	Weak transcription	Brain Hippocampus Middle	brain
2	chr2:142818400-142821400	Weak transcription	Brain Angular Gyrus	brain
3	chr2:142819000-142820000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr2:142819000-142820200	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr2:142819000-142820200	Enhancers	Brain Substantia Nigra	brain
6	chr2:142819400-142820200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr2:142819600-142820000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr2:142819800-142820200	Enhancers	Brain Inferior Temporal Lobe	brain
9	chr2:142819800-142821400	Weak transcription	Brain Anterior Caudate	brain

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