Variant report

Variant	rs1264781
Chromosome Location	chr10:116882794-116882795
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11498596	0.87[CEU][hapmap];0.85[CHB][hapmap];0.82[CHD][hapmap];0.81[GIH][hapmap];0.94[JPT][hapmap];0.88[MEX][hapmap];0.89[TSI][hapmap]
rs1264764	0.90[ASW][hapmap];0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];0.89[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.92[YRI][hapmap]
rs1264770	0.90[ASW][hapmap];0.91[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.87[GIH][hapmap];0.94[JPT][hapmap];0.80[LWK][hapmap];0.96[MEX][hapmap];0.92[TSI][hapmap]
rs1264773	0.87[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.87[GIH][hapmap];0.89[JPT][hapmap];0.88[MEX][hapmap];0.89[TSI][hapmap]
rs1264775	0.89[ASN][1000 genomes]
rs1264778	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1264798	0.87[CEU][hapmap];0.85[CHB][hapmap];0.94[JPT][hapmap]
rs1264801	0.87[EUR][1000 genomes]
rs1264803	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1615076	0.87[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap]
rs1889610	0.87[CEU][hapmap];0.80[JPT][hapmap];0.86[EUR][1000 genomes]
rs2165988	0.87[CEU][hapmap];0.91[CHB][hapmap];0.89[CHD][hapmap];0.87[GIH][hapmap];0.94[JPT][hapmap];0.88[MEX][hapmap];0.89[TSI][hapmap]
rs2201363	0.90[ASW][hapmap];0.87[CEU][hapmap];0.95[CHB][hapmap];0.81[GIH][hapmap];0.94[JPT][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap]
rs2256563	0.87[CEU][hapmap];0.85[JPT][hapmap]
rs9630105	0.87[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1038050	chr10:116315109-116895719	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	esv3435429	chr10:116394152-117006347	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats 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	nsv1043242	chr10:116655057-116883386	Enhancers Strong transcription Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv831998	chr10:116847998-116969618	Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv982865	chr10:116879604-116886328	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs1264781	TRUB1	cis	parietal	SCAN
rs1264781	PRLHR	cis	parietal	SCAN
rs1264781	EIF3A	cis	parietal	SCAN
rs1264781	TDRD1	cis	parietal	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116866000-116885200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr10:116878800-116884000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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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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