Variant report

Variant	rs10276303
Chromosome Location	chr7:3318658-3318659
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 70 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10224126	0.97[EUR][1000 genomes]
rs10232316	0.94[EUR][1000 genomes]
rs10235576	0.96[EUR][1000 genomes]
rs10235581	0.96[EUR][1000 genomes]
rs10237328	0.87[TSI][hapmap]
rs10238854	0.97[EUR][1000 genomes]
rs10241023	0.97[EUR][1000 genomes]
rs10242396	0.97[EUR][1000 genomes]
rs10243425	0.97[EUR][1000 genomes]
rs10246600	0.91[EUR][1000 genomes]
rs10247725	0.82[EUR][1000 genomes]
rs10248528	0.97[EUR][1000 genomes]
rs10248632	0.97[EUR][1000 genomes]
rs10249284	0.97[EUR][1000 genomes]
rs10250846	0.97[EUR][1000 genomes]
rs10253772	0.97[EUR][1000 genomes]
rs10256447	0.81[ASW][hapmap];1.00[CEU][hapmap];0.93[GIH][hapmap];0.97[TSI][hapmap];0.93[YRI][hapmap];0.93[EUR][1000 genomes]
rs10262394	0.97[EUR][1000 genomes]
rs10262464	0.81[YRI][hapmap]
rs10264803	0.83[TSI][hapmap]
rs10266927	0.81[ASW][hapmap];1.00[CEU][hapmap];0.92[GIH][hapmap];0.97[TSI][hapmap];0.93[YRI][hapmap];0.94[EUR][1000 genomes]
rs10267119	0.97[EUR][1000 genomes]
rs10276933	0.81[YRI][hapmap]
rs10278622	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11760339	0.88[TSI][hapmap]
rs12673946	0.92[CEU][hapmap];0.85[TSI][hapmap]
rs1473657	0.97[EUR][1000 genomes]
rs1473658	0.96[EUR][1000 genomes]
rs1473659	0.97[EUR][1000 genomes]
rs1473660	0.97[EUR][1000 genomes]
rs17739417	0.94[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs17812271	0.94[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs2140114	0.81[YRI][hapmap]
rs28668597	0.96[EUR][1000 genomes]
rs28702749	0.92[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs4236325	0.92[CEU][hapmap];0.89[TSI][hapmap]
rs4317476	0.97[EUR][1000 genomes]
rs4317477	0.96[EUR][1000 genomes]
rs4363091	0.92[CEU][hapmap]
rs4379366	0.95[EUR][1000 genomes]
rs4380830	0.96[EUR][1000 genomes]
rs4380831	0.97[EUR][1000 genomes]
rs4517020	0.96[EUR][1000 genomes]
rs4604332	0.98[EUR][1000 genomes]
rs4722708	0.81[YRI][hapmap]
rs6944755	0.98[ASN][1000 genomes]
rs73038857	0.91[EUR][1000 genomes]
rs7803993	0.81[YRI][hapmap]
rs940782	0.89[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs9986770	0.94[EUR][1000 genomes]
rs9986971	0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:19 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1015656	chr7:3131821-3321353	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv464264	chr7:3194156-3349625	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv605880	chr7:3194156-3349625	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1023127	chr7:3216344-3466223	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv605883	chr7:3256973-3320172	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv1018173	chr7:3258989-3879848	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv538660	chr7:3258989-3879848	Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	nsv522584	chr7:3264728-3319399	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv887322	chr7:3264728-3332630	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv464267	chr7:3271998-3320172	Flanking Active TSS Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv471249	chr7:3271998-3320172	Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
12	nsv605884	chr7:3271998-3320172	Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
13	nsv887323	chr7:3271998-3332630	Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
14	esv2758100	chr7:3286625-3560229	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
15	esv2759500	chr7:3286625-3560229	Genic enhancers Flanking Bivalent TSS/Enh Weak transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
16	nsv1016555	chr7:3298478-3872512	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
17	nsv538661	chr7:3298478-3872512	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
18	nsv1019515	chr7:3300048-3479972	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
19	nsv887324	chr7:3308195-3400105	Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10276303	SDK1	cis	Adipose Subcutaneous	GTEx
rs10276303	MAD1L1	cis	parietal	SCAN
rs10276303	NUDT1	cis	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:3313400-3319000	Weak transcription	Aorta	Aorta
2	chr7:3313800-3318800	Weak transcription	Fetal Brain Male	brain
3	chr7:3318600-3318800	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr7:3318600-3318800	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
5	chr7:3318600-3318800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr7:3318600-3319400	Enhancers	Fetal Heart	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links