Variant report

Variant	rs1303870
Chromosome Location	chr1:76359535-76359536
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 126 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:117)

rs_ID	r²[population]
rs1001160	0.84[CEU][hapmap]
rs1021462	0.95[CHB][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1021464	0.88[ASN][1000 genomes]
rs10732724	0.85[JPT][hapmap]
rs10873738	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs10873797	0.84[CEU][hapmap]
rs10873804	0.81[CHB][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs11161447	0.91[CHB][hapmap];0.86[JPT][hapmap]
rs11161465	0.91[CHB][hapmap];0.86[JPT][hapmap]
rs11161602	0.91[CHB][hapmap];0.90[JPT][hapmap]
rs11161731	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs11161848	0.84[CEU][hapmap]
rs11161852	0.91[CHB][hapmap];0.90[JPT][hapmap]
rs11161887	1.00[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap]
rs1144328	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs1144331	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs1144333	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs1144337	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs1144342	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs1146647	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs1146648	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs1146649	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs1146651	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs1146652	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs11578480	0.84[CEU][hapmap]
rs11588643	0.84[CEU][hapmap]
rs1159215	0.84[CEU][hapmap]
rs12021750	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs12022011	1.00[CHB][hapmap];0.83[JPT][hapmap]
rs12024645	0.91[CHB][hapmap];0.80[CHD][hapmap];0.91[JPT][hapmap]
rs12027620	0.95[CHB][hapmap];0.80[JPT][hapmap]
rs12032051	0.91[CHB][hapmap];0.81[JPT][hapmap]
rs12033058	0.91[CHB][hapmap];0.91[JPT][hapmap]
rs12044025	0.86[CHB][hapmap];0.95[JPT][hapmap]
rs12044211	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs12076093	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs12087636	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12090712	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs12130832	0.82[CEU][hapmap]
rs12142247	0.83[CEU][hapmap]
rs12401729	0.91[CHB][hapmap];0.91[JPT][hapmap]
rs12407107	0.91[CHB][hapmap];0.80[CHD][hapmap];0.91[JPT][hapmap]
rs12409592	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs12410373	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs1250876	0.92[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];0.81[TSI][hapmap]
rs1250880	0.88[CEU][hapmap];0.91[CHB][hapmap];0.81[JPT][hapmap]
rs1251078	0.81[CHB][hapmap]
rs1251079	0.81[CHB][hapmap]
rs1251272	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs1251274	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs12567390	0.89[CHB][hapmap];0.89[JPT][hapmap]
rs12703	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs12732495	0.81[CHD][hapmap];0.91[JPT][hapmap]
rs12744608	0.91[CHB][hapmap];0.81[JPT][hapmap]
rs1498311	0.84[CEU][hapmap]
rs1498313	0.90[JPT][hapmap]
rs1586936	0.88[ASN][1000 genomes]
rs1603734	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs1628063	0.84[CEU][hapmap]
rs1630587	0.84[CEU][hapmap]
rs1689270	0.84[CEU][hapmap]
rs1689271	0.91[JPT][hapmap];0.82[LWK][hapmap]
rs17097681	0.91[CHB][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs17097695	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs17647178	0.84[CEU][hapmap]
rs17649675	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs1770513	0.81[CHB][hapmap]
rs1770889	0.84[CEU][hapmap]
rs1796812	0.86[JPT][hapmap];0.82[LWK][hapmap]
rs1796813	0.84[CEU][hapmap]
rs1796815	0.84[CEU][hapmap]
rs1796827	0.84[CEU][hapmap]
rs1856791	0.83[CEU][hapmap]
rs1908089	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs2029682	0.84[CEU][hapmap]
rs2047435	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs2307077	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs35290302	0.91[CHB][hapmap];0.80[CHD][hapmap];0.95[JPT][hapmap]
rs3737574	0.91[CHB][hapmap];0.80[CHD][hapmap];0.91[JPT][hapmap]
rs3765682	0.91[CHB][hapmap];0.91[JPT][hapmap]
rs3795251	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs3819949	0.91[CHB][hapmap];0.83[CHD][hapmap];0.95[JPT][hapmap]
rs4638068	0.88[CEU][hapmap]
rs5745314	0.91[CHB][hapmap];0.91[JPT][hapmap]
rs5745327	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs5745331	0.84[CEU][hapmap]
rs5745334	0.91[CHB][hapmap];0.91[JPT][hapmap]
rs5745343	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs5745347	0.84[CEU][hapmap]
rs5745354	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs5745383	0.87[CEU][hapmap]
rs5745392	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs5745394	0.83[CEU][hapmap]
rs5745429	0.91[CHB][hapmap];0.90[JPT][hapmap]
rs5745430	0.84[CEU][hapmap]
rs5745448	0.86[CHB][hapmap];0.80[CHD][hapmap];0.95[JPT][hapmap]
rs5745451	0.81[CHB][hapmap];0.84[CHD][hapmap];0.95[JPT][hapmap]
rs5745464	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs5745465	0.91[CHB][hapmap];0.91[JPT][hapmap]
rs5745523	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap]
rs5745532	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs5745542	0.91[CHB][hapmap];0.86[JPT][hapmap]
rs5745543	0.83[CEU][hapmap]
rs5745545	0.84[CEU][hapmap]
rs5745546	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[YRI][hapmap]
rs5745547	0.84[CEU][hapmap]
rs6656501	0.84[CEU][hapmap]
rs6687882	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[GIH][hapmap];0.85[JPT][hapmap];1.00[LWK][hapmap];0.87[MEX][hapmap];0.92[MKK][hapmap];0.98[TSI][hapmap];0.93[YRI][hapmap]
rs6695055	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs7514912	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs7516477	0.92[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];0.81[TSI][hapmap]
rs7525919	0.91[CHB][hapmap];0.90[JPT][hapmap]
rs7545057	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs7548391	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs7548991	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs931506	0.81[JPT][hapmap]
rs9660848	0.95[CHB][hapmap];0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014072	chr1:76200531-76460726	Genic enhancers Enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv535005	chr1:76200531-76460726	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
3	esv1795237	chr1:76268573-76383565	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	esv1800125	chr1:76269439-76379497	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	esv1799260	chr1:76269439-76383297	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	esv1847721	chr1:76269439-76383565	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv1004669	chr1:76301198-76409451	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv871671	chr1:76304215-76391646	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	esv1850335	chr1:76344705-76379497	Enhancers Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs1303870	ACADM	cis	lymphoblastoid	seeQTL
rs1303870	RABGGTB	cis	cerebellum	SCAN
rs1303870	SNORD45B	cis	cerebellum	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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