Variant report

Variant	rs10738485
Chromosome Location	chr9:17688527-17688528
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 82 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs1000770	0.91[CHB][hapmap]
rs10118522	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs10738482	0.95[CHB][hapmap];0.85[GIH][hapmap];0.91[MEX][hapmap];0.86[TSI][hapmap];0.85[EUR][1000 genomes]
rs10756895	0.82[EUR][1000 genomes]
rs10756896	1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10756910	0.91[CHB][hapmap]
rs10810817	1.00[CEU][hapmap];0.91[CHB][hapmap];0.93[GIH][hapmap];0.81[JPT][hapmap];0.91[MEX][hapmap];0.98[TSI][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10810818	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10810819	0.92[ASN][1000 genomes]
rs10810821	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs10810822	0.95[CHB][hapmap]
rs10810828	1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap]
rs10963190	0.91[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs10963191	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10963195	0.91[ASN][1000 genomes]
rs10963196	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10963210	1.00[CEU][hapmap];0.95[CHB][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1536064	0.95[CHB][hapmap];0.83[EUR][1000 genomes]
rs1536065	0.96[CEU][hapmap];0.91[CHB][hapmap];0.82[GIH][hapmap];0.81[JPT][hapmap];0.83[MEX][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1536066	0.91[CHB][hapmap]
rs1536069	0.92[CEU][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1536073	0.82[MEX][hapmap]
rs16935877	0.81[YRI][hapmap]
rs2025557	0.87[MEX][hapmap]
rs2025559	0.92[CEU][hapmap];0.85[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2147729	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2147735	0.95[CHB][hapmap]
rs2147736	0.91[CHB][hapmap];0.82[EUR][1000 genomes]
rs2182083	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2182084	0.95[CHB][hapmap];0.95[MEX][hapmap];0.85[TSI][hapmap]
rs2182085	0.91[CHB][hapmap]
rs2182086	0.86[CHB][hapmap]
rs2182087	0.86[MEX][hapmap]
rs2182090	0.91[CHB][hapmap];0.87[MEX][hapmap];0.85[TSI][hapmap];0.82[EUR][1000 genomes]
rs2209433	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2209434	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2209435	0.95[CHB][hapmap]
rs2209437	0.82[MEX][hapmap]
rs2383044	0.91[CHB][hapmap]
rs3780232	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs3780234	0.95[CHB][hapmap];0.95[MEX][hapmap];0.87[TSI][hapmap]
rs3780235	0.95[CHB][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3780236	0.92[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3808700	0.86[CHB][hapmap];0.91[MEX][hapmap]
rs3808704	1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs3808707	1.00[CHB][hapmap];0.86[JPT][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3808708	0.82[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.86[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.93[TSI][hapmap];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3808709	1.00[CHB][hapmap];0.85[CHD][hapmap];0.95[JPT][hapmap]
rs3808711	0.93[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.90[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs3808712	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.90[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap]
rs3808713	0.85[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.91[YRI][hapmap]
rs3808714	0.95[CHB][hapmap]
rs3808716	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3808717	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs3808718	0.91[CHB][hapmap];0.91[MEX][hapmap];0.80[TSI][hapmap]
rs3808719	0.91[CHB][hapmap]
rs3808720	0.96[CEU][hapmap];0.95[CHB][hapmap];0.89[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3808721	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3808723	0.91[CHB][hapmap]
rs3824383	1.00[CEU][hapmap];0.90[CHB][hapmap];0.80[JPT][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4418424	0.95[CHB][hapmap];0.91[MEX][hapmap];0.80[TSI][hapmap]
rs4578059	0.92[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4601434	0.85[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];0.86[JPT][hapmap];0.95[MEX][hapmap];0.86[TSI][hapmap]
rs67384654	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7020158	0.95[CHB][hapmap];0.81[EUR][1000 genomes]
rs7021836	1.00[CHB][hapmap];0.88[CHD][hapmap];0.80[JPT][hapmap];0.95[MEX][hapmap];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs717373	0.91[MEX][hapmap]
rs7856894	0.95[CHB][hapmap];0.82[AMR][1000 genomes]
rs7858624	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs7862689	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7870919	0.95[CHB][hapmap];0.91[MEX][hapmap];0.82[TSI][hapmap]
rs7874762	0.85[CEU][hapmap];0.95[CHB][hapmap];0.87[MEX][hapmap];0.84[TSI][hapmap]
rs7875460	0.85[ASN][1000 genomes]
rs7875763	0.85[JPT][hapmap];0.91[MEX][hapmap];0.82[TSI][hapmap];0.82[EUR][1000 genomes]
rs961372	0.91[CHB][hapmap];0.82[EUR][1000 genomes]
rs998599	0.91[CHB][hapmap];0.91[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv613693	chr9:17147191-17710407	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv471287	chr9:17165698-17708814	Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv466269	chr9:17165698-17710407	Weak transcription ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv892674	chr9:17631186-17699981	Enhancers Weak transcription Active TSS	n/a	n/a	inside rSNPs	diseases
5	nsv1016971	chr9:17648242-17720176	Enhancers Weak transcription Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
6	nsv1021022	chr9:17649360-17723730	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10738485	IFNA2	cis	parietal	SCAN

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

No data

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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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