Variant report

Variant	rs7411035
Chromosome Location	chr1:160856076-160856077
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 81 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10797087	0.86[EUR][1000 genomes]
rs10908808	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10908809	0.89[EUR][1000 genomes]
rs10908810	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10908811	0.86[EUR][1000 genomes]
rs10908812	0.86[EUR][1000 genomes]
rs11265510	0.88[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.80[MKK][hapmap];0.83[TSI][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11265514	0.96[AFR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11265516	0.86[EUR][1000 genomes]
rs11265519	0.86[EUR][1000 genomes]
rs11578752	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11587040	0.88[CEU][hapmap];0.84[MEX][hapmap]
rs12126310	0.81[JPT][hapmap];0.81[LWK][hapmap];0.90[MEX][hapmap]
rs12135639	0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12409609	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1333062	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17387157	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1810924	0.85[EUR][1000 genomes]
rs1855186	0.88[CEU][hapmap];0.89[MEX][hapmap]
rs1855187	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1930596	0.86[EUR][1000 genomes]
rs2039415	1.00[CEU][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2151293	0.86[AMR][1000 genomes]
rs2184067	0.84[AMR][1000 genomes]
rs2184069	0.84[AMR][1000 genomes]
rs2225591	0.86[EUR][1000 genomes]
rs2236515	0.96[CEU][hapmap];0.91[EUR][1000 genomes]
rs2274905	0.96[CEU][hapmap];0.80[YRI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2274907	0.96[CEU][hapmap];0.82[GIH][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2274908	0.96[CEU][hapmap];0.83[GIH][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2274909	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2274910	0.96[CEU][hapmap];0.83[GIH][hapmap];0.83[LWK][hapmap];0.90[MEX][hapmap];0.82[MKK][hapmap];0.92[TSI][hapmap];0.92[YRI][hapmap];0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2297559	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34067571	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3766356	0.96[CEU][hapmap];0.84[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3766357	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3766359	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3818724	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3820094	0.96[CEU][hapmap];0.84[MEX][hapmap];0.90[TSI][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3829790	0.85[MEX][hapmap]
rs4017448	0.84[AMR][1000 genomes]
rs4017458	0.83[AMR][1000 genomes]
rs4017460	0.86[AMR][1000 genomes]
rs4656944	0.86[AMR][1000 genomes]
rs4656945	0.86[AMR][1000 genomes]
rs4656950	0.86[AMR][1000 genomes]
rs4656951	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4656953	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4656955	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4656956	0.96[CEU][hapmap];0.84[MEX][hapmap];0.90[TSI][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4656957	0.96[CEU][hapmap];0.84[MEX][hapmap];0.90[TSI][hapmap];0.91[EUR][1000 genomes]
rs4656958	1.00[CEU][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4656959	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4656971	0.85[MEX][hapmap]
rs6427550	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6427551	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6427552	0.96[CEU][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6427553	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6658416	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6667400	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6671490	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6676174	0.84[AMR][1000 genomes]
rs6685693	0.86[AMR][1000 genomes]
rs6691868	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6694415	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6699162	0.86[AMR][1000 genomes]
rs6699166	0.87[AMR][1000 genomes]
rs6700146	0.84[AMR][1000 genomes]
rs6703406	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6704490	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7414728	0.86[AMR][1000 genomes]
rs7414826	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7516660	0.88[CEU][hapmap];0.84[MEX][hapmap]
rs7524351	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7532133	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7551697	0.98[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs869168	0.86[AMR][1000 genomes]
rs952804	0.84[AMR][1000 genomes]
rs959047	0.86[AMR][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	nsv530077	chr1:160836448-161284904	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
2	esv3430322	chr1:160851829-160920480	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7411035	SMG5	cis	cerebellum	SCAN
rs7411035	LMNA	cis	parietal	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:160853600-160858800	Weak transcription	Gastric	stomach
2	chr1:160855400-160857000	Weak transcription	Primary monocytes fromperipheralblood	blood
3	chr1:160855400-160857000	Weak transcription	Monocytes-CD14+_RO01746	blood
4	chr1:160855400-160860200	Weak transcription	Fetal Heart	heart

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