Variant report

Variant	rs10459970
Chromosome Location	chr17:19937341-19937342
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10459969	1.00[ASN][1000 genomes]
rs12051550	0.90[CEU][hapmap];0.85[MEX][hapmap]
rs16942325	1.00[CEU][hapmap]
rs16960554	0.81[CEU][hapmap];0.82[JPT][hapmap];0.87[EUR][1000 genomes]
rs16960644	0.82[AMR][1000 genomes]
rs16960660	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs16960717	0.85[MEX][hapmap]
rs16960730	0.85[MEX][hapmap]
rs2008758	0.86[EUR][1000 genomes]
rs2385960	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28567541	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs28622601	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs34291370	0.85[ASN][1000 genomes]
rs3764436	0.90[CEU][hapmap];0.85[MEX][hapmap]
rs56142708	0.85[ASN][1000 genomes]
rs57040439	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57673732	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58313980	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59890010	0.89[EUR][1000 genomes]
rs61749865	0.83[EUR][1000 genomes]
rs7218708	0.85[ASN][1000 genomes]
rs7221750	0.88[YRI][hapmap]
rs72843506	1.00[ASN][1000 genomes]
rs73296067	0.89[EUR][1000 genomes]
rs73980762	0.89[EUR][1000 genomes]
rs73984559	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8073875	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9913018	0.90[CEU][hapmap]
rs9916729	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1062853	chr17:19547912-20206601	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	nsv907868	chr17:19768924-20217122	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv833394	chr17:19827714-19999577	Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv1060337	chr17:19828636-20204872	Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	nsv543257	chr17:19828636-20204872	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
6	nsv907870	chr17:19871922-20001612	Enhancers Flanking Active TSS Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
7	nsv907871	chr17:19927699-20088492	Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv482438	chr17:19934376-20089005	Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10459970	AKAP10	cis	Whole Blood	GTEx
rs10459970	ALDH3A1	cis	parietal	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:19914600-19938400	Weak transcription	Brain Hippocampus Middle	brain
2	chr17:19923400-19956600	Weak transcription	A549	lung
3	chr17:19923600-19946400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr17:19926400-19947000	Weak transcription	Brain Angular Gyrus	brain
5	chr17:19932000-19956800	Weak transcription	Ovary	ovary
6	chr17:19936000-19937400	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr17:19936200-19937400	Enhancers	Monocytes-CD14+_RO01746	blood
8	chr17:19936200-19946200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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