Variant report

Variant	rs17260438
Chromosome Location	chr1:210662875-210662876
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10489385	1.00[ASW][hapmap]
rs10779529	0.83[AFR][1000 genomes]
rs11119487	0.83[AFR][1000 genomes]
rs12028017	0.83[AFR][1000 genomes]
rs12035213	0.83[AFR][1000 genomes]
rs12117750	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12119268	0.83[AFR][1000 genomes]
rs12124208	0.92[CEU][hapmap];1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12142231	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12143482	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12143703	1.00[ASW][hapmap];0.91[CEU][hapmap];0.90[TSI][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12145163	1.00[ASW][hapmap];0.92[CEU][hapmap];0.90[TSI][hapmap];1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17260431	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17260466	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3765848	0.83[AFR][1000 genomes]
rs3765853	0.83[AFR][1000 genomes]
rs3819985	1.00[ASW][hapmap];0.83[AFR][1000 genomes]
rs4253918	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4620549	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55726579	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs55780618	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6540599	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][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	nsv4376	chr1:210627620-210672326	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	esv275540	chr1:210658336-210663000	Enhancers Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17260438	DYRK3	cis	parietal	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:210639400-210668200	Weak transcription	Primary T cells from cord blood	blood
2	chr1:210643200-210674000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr1:210653800-210678800	Weak transcription	HSMM	muscle
4	chr1:210657000-210663600	Weak transcription	Brain Cingulate Gyrus	brain
5	chr1:210657000-210669600	Weak transcription	Brain Substantia Nigra	brain
6	chr1:210658800-210663000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr1:210658800-210664800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr1:210659000-210663600	Strong transcription	HSMMtube	muscle
9	chr1:210660600-210664600	Weak transcription	Aorta	Aorta
10	chr1:210662000-210663400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr1:210662200-210663600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr1:210662600-210663400	Enhancers	Fetal Stomach	stomach
13	chr1:210662600-210664800	Enhancers	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links