Variant report

Variant	rs3818313
Chromosome Location	chr10:98091934-98091935
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:98088637..98090186-chr10:98091371..98093641,2	K562	blood:

Extended variants
information (count: 66 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10509708	1.00[CHB][hapmap];0.88[GIH][hapmap];1.00[MEX][hapmap]
rs10748673	0.84[CHD][hapmap]
rs10786277	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10786278	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10786279	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10786282	0.84[CHD][hapmap]
rs10882772	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[GIH][hapmap];1.00[MEX][hapmap];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10882773	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10882774	0.96[ASN][1000 genomes]
rs10882777	0.84[CHD][hapmap]
rs11188697	0.85[CHB][hapmap]
rs11188702	0.83[AMR][1000 genomes]
rs11188704	1.00[CHB][hapmap];0.82[GIH][hapmap];1.00[MEX][hapmap]
rs11188705	1.00[CHB][hapmap]
rs11188709	1.00[CEU][hapmap];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11188724	0.81[CEU][hapmap];0.82[TSI][hapmap]
rs11188725	0.81[CEU][hapmap];0.82[TSI][hapmap]
rs11591467	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[GIH][hapmap];1.00[MEX][hapmap];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11593073	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11593074	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11593503	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11597348	1.00[CEU][hapmap];0.85[CHB][hapmap];0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11598258	1.00[CHB][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap]
rs11818942	0.89[CEU][hapmap];0.83[CHD][hapmap]
rs12269557	1.00[CHB][hapmap];0.88[GIH][hapmap];1.00[MEX][hapmap]
rs12571241	0.81[CEU][hapmap];0.82[TSI][hapmap]
rs12572329	0.81[CEU][hapmap];0.82[TSI][hapmap]
rs12761715	1.00[CHB][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap]
rs12766367	1.00[CHB][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap]
rs12772674	1.00[CHB][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap]
rs12774154	1.00[CHB][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap]
rs12779164	1.00[CHB][hapmap]
rs12779564	1.00[CHB][hapmap];0.96[GIH][hapmap];0.88[MEX][hapmap]
rs17111609	1.00[ASW][hapmap];1.00[CHB][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];0.82[AMR][1000 genomes]
rs17111612	1.00[ASW][hapmap];1.00[CHB][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];0.82[AMR][1000 genomes]
rs17111614	1.00[CHB][hapmap]
rs17111622	1.00[CHB][hapmap]
rs17111628	1.00[CHB][hapmap];0.92[GIH][hapmap];1.00[MEX][hapmap]
rs17111733	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1923703	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1923707	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1923708	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2146393	0.81[CEU][hapmap]
rs2146394	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2154183	0.81[CEU][hapmap];1.00[ASN][1000 genomes]
rs2181322	0.87[AMR][1000 genomes]
rs2273891	1.00[ASW][hapmap];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[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2861572	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2901989	0.81[CEU][hapmap]
rs2901990	0.84[CHD][hapmap]
rs34128907	0.91[AMR][1000 genomes]
rs35388328	0.82[AMR][1000 genomes]
rs35531390	0.82[AMR][1000 genomes]
rs3789937	1.00[CHB][hapmap];0.88[GIH][hapmap];1.00[MEX][hapmap]
rs3789942	0.84[CHD][hapmap]
rs4917732	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7073871	1.00[CHB][hapmap];0.88[GIH][hapmap];1.00[MEX][hapmap]
rs7077344	1.00[CEU][hapmap];0.92[CHD][hapmap];1.00[MEX][hapmap];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7096879	1.00[ASN][1000 genomes]
rs71482402	0.82[AMR][1000 genomes]
rs71484204	0.87[AMR][1000 genomes]
rs71484205	0.87[AMR][1000 genomes]
rs72811058	0.91[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7893551	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[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
rs3818313	CHUK	cis	parietal	SCAN
rs3818313	GOT1	cis	cerebellum	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98089600-98092200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr10:98089600-98092600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr10:98089600-98095200	Genic enhancers	Dnd41	blood
4	chr10:98091200-98094800	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr10:98091600-98094800	Enhancers	Fetal Thymus	thymus
6	chr10:98091800-98093200	Genic enhancers	Thymus	Thymus
7	chr10:98091800-98093800	Enhancers	Primary T helper cells PMA-I stimulated	--
8	chr10:98091800-98094000	Enhancers	Primary T regulatory cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links