Variant report

Variant	rs2146392
Chromosome Location	chr10:98111279-98111280
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10218881	0.90[ASN][1000 genomes]
rs10748671	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10748673	0.90[CEU][hapmap];0.84[TSI][hapmap];0.81[EUR][1000 genomes]
rs10786280	0.90[ASN][1000 genomes]
rs10786282	0.90[CEU][hapmap];0.84[TSI][hapmap];0.81[EUR][1000 genomes]
rs10882775	0.90[ASN][1000 genomes]
rs10882779	0.90[CEU][hapmap];0.87[CHB][hapmap];0.80[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10882781	0.90[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11188722	0.90[ASN][1000 genomes]
rs11188724	0.87[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs11188725	0.87[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs11188726	0.90[ASN][1000 genomes]
rs11188731	0.81[JPT][hapmap]
rs12254238	0.90[ASN][1000 genomes]
rs12268819	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs12571241	0.87[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs12572329	0.87[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs1923702	0.81[JPT][hapmap]
rs1923704	0.90[ASN][1000 genomes]
rs1923706	0.90[ASN][1000 genomes]
rs2146393	0.87[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs2861574	0.90[ASN][1000 genomes]
rs2901989	0.87[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs3814224	0.91[CHB][hapmap];0.98[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs4424609	0.90[ASN][1000 genomes]
rs4917734	0.86[CEU][hapmap];0.87[EUR][1000 genomes]
rs7085949	0.90[ASN][1000 genomes]
rs7096643	0.90[ASN][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	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	nsv831950	chr10:98080972-98245434	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2146392	SFRP5	cis	cerebellum	SCAN
rs2146392	PI4K2A	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98105000-98113200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr10:98106200-98112600	Weak transcription	Brain Anterior Caudate	brain
3	chr10:98106200-98113000	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr10:98106200-98126000	Weak transcription	Aorta	Aorta
5	chr10:98106600-98112400	Weak transcription	Brain Substantia Nigra	brain
6	chr10:98106600-98112400	Weak transcription	Dnd41	blood
7	chr10:98109600-98111400	Weak transcription	Brain Hippocampus Middle	brain
8	chr10:98109600-98112000	Weak transcription	Brain Cingulate Gyrus	brain
9	chr10:98109600-98113000	Weak transcription	Thymus	Thymus
10	chr10:98110800-98114200	Enhancers	Brain Angular Gyrus	brain
11	chr10:98111200-98114200	Enhancers	Fetal Intestine Small	intestine

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