Variant report

Variant	rs979452
Chromosome Location	chr2:213353139-213353140
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:33)

rs_ID	r²[population]
rs10497975	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11888697	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11892661	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12987104	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13000748	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13000920	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13015808	0.86[CEU][hapmap];1.00[YRI][hapmap]
rs13027397	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1505370	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1505371	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1505377	0.95[CEU][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17259208	1.00[YRI][hapmap]
rs17259910	0.90[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17261653	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17262115	0.95[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17325612	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17325821	0.90[CEU][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17327185	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1921629	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1982717	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2062929	0.95[CEU][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2062931	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34511581	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34947061	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35610945	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56102637	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56387110	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62186285	0.82[EUR][1000 genomes]
rs62186286	0.82[EUR][1000 genomes]
rs62186287	0.82[EUR][1000 genomes]
rs62186292	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7575120	0.80[EUR][1000 genomes]
rs982075	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1004573	chr2:213186537-213365252	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
2	nsv432024	chr2:213314899-213446726	Bivalent/Poised TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv948878	chr2:213345197-213534298	Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 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	chr2:213350200-213353400	Weak transcription	Brain Cingulate Gyrus	brain
2	chr2:213350600-213353400	Weak transcription	Psoas Muscle	Psoas
3	chr2:213350800-213353600	Weak transcription	Aorta	Aorta
4	chr2:213351200-213353800	Enhancers	Brain Anterior Caudate	brain
5	chr2:213352200-213354200	Enhancers	Fetal Heart	heart
6	chr2:213352400-213354000	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr2:213352600-213353800	Enhancers	Brain Angular Gyrus	brain
8	chr2:213352800-213353400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr2:213352800-213353400	Enhancers	Brain Hippocampus Middle	brain
10	chr2:213353000-213354000	Enhancers	Brain Substantia Nigra	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links