Variant report

Variant	rs10234219
Chromosome Location	chr7:146311852-146311853
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 72 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10258848	0.82[ASW][hapmap];1.00[CEU][hapmap];0.85[CHD][hapmap];0.87[GIH][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10277654	0.96[CEU][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes]
rs10280592	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10487927	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap]
rs10952646	0.85[CHB][hapmap];0.87[MEX][hapmap];0.81[TSI][hapmap]
rs10952648	1.00[JPT][hapmap]
rs1155384	1.00[ASW][hapmap];0.92[CEU][hapmap];0.92[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.99[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs11766238	0.85[CHB][hapmap]
rs12535870	0.85[CHB][hapmap]
rs12703821	0.81[TSI][hapmap]
rs13222136	0.81[TSI][hapmap]
rs13227381	0.81[TSI][hapmap]
rs13239405	0.90[JPT][hapmap];0.89[EUR][1000 genomes]
rs13239605	0.85[CHB][hapmap]
rs13247654	0.92[CHB][hapmap];0.82[CHD][hapmap];0.90[JPT][hapmap];0.91[MEX][hapmap];0.83[TSI][hapmap]
rs1494450	0.81[JPT][hapmap]
rs1494455	0.89[JPT][hapmap];0.88[EUR][1000 genomes]
rs17513926	0.87[MEX][hapmap]
rs17517293	0.86[ASN][1000 genomes]
rs17586018	0.81[TSI][hapmap]
rs1908320	0.89[EUR][1000 genomes]
rs347180	0.89[CEU][hapmap];0.85[GIH][hapmap];0.81[JPT][hapmap]
rs347195	0.84[CEU][hapmap]
rs347198	0.85[CEU][hapmap];0.82[CHD][hapmap];0.85[GIH][hapmap];0.90[JPT][hapmap]
rs347201	0.85[CEU][hapmap];0.90[JPT][hapmap]
rs347202	0.85[CEU][hapmap];0.89[JPT][hapmap]
rs347204	0.85[CEU][hapmap];0.90[JPT][hapmap]
rs347205	0.85[CEU][hapmap];0.89[JPT][hapmap]
rs347206	0.85[CEU][hapmap];0.82[CHD][hapmap];0.85[GIH][hapmap];0.90[JPT][hapmap]
rs347209	0.85[CEU][hapmap];0.90[JPT][hapmap]
rs347211	0.85[CEU][hapmap];0.90[JPT][hapmap]
rs347212	0.85[CEU][hapmap];0.90[JPT][hapmap]
rs347215	0.85[CEU][hapmap];0.81[CHD][hapmap];0.85[GIH][hapmap];0.90[JPT][hapmap]
rs347216	0.85[CEU][hapmap];0.81[CHD][hapmap];0.85[GIH][hapmap];0.90[JPT][hapmap]
rs347217	0.85[CEU][hapmap];0.84[GIH][hapmap];0.90[JPT][hapmap]
rs347220	0.81[CHD][hapmap];0.90[JPT][hapmap]
rs347222	0.85[CEU][hapmap];0.89[JPT][hapmap]
rs347223	0.83[GIH][hapmap];0.90[JPT][hapmap]
rs347226	0.89[JPT][hapmap]
rs347228	0.90[JPT][hapmap]
rs369723	0.81[JPT][hapmap]
rs445561	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs4726808	0.92[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.83[TSI][hapmap];0.91[ASN][1000 genomes]
rs4726809	0.89[EUR][1000 genomes]
rs6957488	0.92[CHB][hapmap];0.81[JPT][hapmap]
rs6960246	0.83[YRI][hapmap]
rs714584	1.00[CEU][hapmap];0.81[CHD][hapmap];0.90[JPT][hapmap];0.87[MEX][hapmap];0.95[TSI][hapmap];0.89[EUR][1000 genomes]
rs724216	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap]
rs7456508	0.88[EUR][1000 genomes]
rs7458498	0.89[EUR][1000 genomes]
rs7458540	0.86[EUR][1000 genomes]
rs766094	0.81[LWK][hapmap];0.88[YRI][hapmap]
rs7789802	0.88[ASW][hapmap];1.00[CEU][hapmap];0.85[CHD][hapmap];0.87[GIH][hapmap];0.90[JPT][hapmap];0.89[LWK][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7799603	0.83[YRI][hapmap]
rs7810281	0.88[EUR][1000 genomes]
rs9691874	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.99[MKK][hapmap];0.96[YRI][hapmap]
rs9886307	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1017138	chr7:146102286-146318562	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv1028798	chr7:146138480-146318562	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv889391	chr7:146168418-146389259	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv1032959	chr7:146193191-146351005	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1021967	chr7:146199590-146413808	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv1015996	chr7:146202073-146419347	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv934014	chr7:146212698-146400508	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
8	nsv1022547	chr7:146226298-146624409	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
9	nsv996300	chr7:146236230-146663300	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
10	nsv1025948	chr7:146252115-146393151	Weak transcription Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv948895	chr7:146260214-146348562	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	esv2761376	chr7:146287876-146334647	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	nsv1018605	chr7:146287876-146448400	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
14	nsv889392	chr7:146292088-146446767	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	nsv1027561	chr7:146308783-146762872	Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10234219	TPK1	cis	cerebellum	SCAN
rs10234219	OR2A2	cis	parietal	SCAN
rs10234219	EPHB6	cis	parietal	SCAN

Chromatin state (count:0 , 50 per page) page:

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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