Variant report

Variant	rs17108405
Chromosome Location	chr14:79420639-79420640
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10483919	0.84[EUR][1000 genomes]
rs10873319	1.00[ASW][hapmap];0.95[CHB][hapmap];0.87[CHD][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];0.86[MKK][hapmap];1.00[YRI][hapmap]
rs11159385	0.87[CHB][hapmap];0.94[JPT][hapmap];0.92[ASN][1000 genomes]
rs11159386	0.93[ASW][hapmap];0.91[CHB][hapmap];0.87[CHD][hapmap];0.94[JPT][hapmap];0.81[LWK][hapmap];0.92[ASN][1000 genomes]
rs11159387	0.87[CHB][hapmap];0.94[JPT][hapmap];0.92[ASN][1000 genomes]
rs11159388	1.00[ASW][hapmap];0.87[CHB][hapmap];0.85[CHD][hapmap];0.89[JPT][hapmap];1.00[LWK][hapmap];0.86[MKK][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs11159389	0.93[ASW][hapmap];0.87[CHB][hapmap];0.85[CHD][hapmap];0.89[JPT][hapmap];0.87[LWK][hapmap];0.82[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs11159390	0.83[CHB][hapmap];0.85[CHD][hapmap];0.81[GIH][hapmap];0.89[JPT][hapmap];0.86[MKK][hapmap];0.90[ASN][1000 genomes]
rs11845894	0.95[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs11847534	0.81[ASW][hapmap];0.87[CHB][hapmap];0.85[CHD][hapmap];0.89[JPT][hapmap];0.91[ASN][1000 genomes]
rs11847702	0.87[CHB][hapmap];0.89[JPT][hapmap];0.83[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs12050287	0.93[ASW][hapmap];0.87[CHB][hapmap];0.85[CHD][hapmap];0.94[JPT][hapmap];0.81[LWK][hapmap];0.92[ASN][1000 genomes]
rs12588364	0.87[CHB][hapmap];0.85[CHD][hapmap];0.94[JPT][hapmap]
rs149088	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs150774	0.91[CHB][hapmap];0.89[JPT][hapmap]
rs154323	0.95[CHB][hapmap];0.94[JPT][hapmap]
rs154324	0.88[MEX][hapmap]
rs154329	0.80[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs154330	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs154331	0.88[CEU][hapmap];0.91[EUR][1000 genomes]
rs154333	0.95[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs154334	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs154336	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs154337	0.91[EUR][1000 genomes]
rs154338	0.85[EUR][1000 genomes]
rs154340	0.80[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap]
rs154343	1.00[CHB][hapmap];0.98[CHD][hapmap];0.89[JPT][hapmap];0.88[MEX][hapmap];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs154376	0.95[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap]
rs154378	0.95[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap]
rs17108397	0.87[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap]
rs17108401	0.98[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17108413	0.98[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17757946	0.84[EUR][1000 genomes]
rs17757966	0.84[EUR][1000 genomes]
rs17757972	0.84[EUR][1000 genomes]
rs17835893	0.83[EUR][1000 genomes]
rs17835908	0.84[EUR][1000 genomes]
rs17835914	0.84[EUR][1000 genomes]
rs220103	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs220104	0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs220105	0.89[EUR][1000 genomes]
rs2272292	0.87[CHB][hapmap];0.89[JPT][hapmap];0.91[ASN][1000 genomes]
rs2272293	0.87[CHB][hapmap];0.89[JPT][hapmap];0.91[ASN][1000 genomes]
rs31349	0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs31351	0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs31352	0.93[ASN][1000 genomes]
rs31424	0.82[CHB][hapmap];0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs31426	0.91[CHB][hapmap];1.00[CHD][hapmap];0.89[JPT][hapmap];0.88[MEX][hapmap];0.87[ASN][1000 genomes]
rs31429	0.82[CHB][hapmap]
rs31436	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs31437	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs31439	0.92[ASN][1000 genomes]
rs31441	0.87[CHB][hapmap];0.84[JPT][hapmap]
rs31448	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs31450	0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs31451	0.83[EUR][1000 genomes]
rs3817535	0.96[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs52897	0.88[EUR][1000 genomes]
rs60746359	0.97[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs61330422	0.89[ASN][1000 genomes]
rs7142134	0.81[ASW][hapmap];0.95[CHB][hapmap];0.87[CHD][hapmap];0.84[JPT][hapmap]
rs7144101	0.93[ASW][hapmap];0.97[LWK][hapmap];0.82[MKK][hapmap];0.96[YRI][hapmap]
rs7146473	0.82[CHB][hapmap]
rs7157841	0.87[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs718787	0.84[EUR][1000 genomes]
rs8003966	0.91[ASN][1000 genomes]
rs8007109	0.89[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs8007461	0.81[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8008480	0.81[AMR][1000 genomes]
rs8011529	0.95[CHB][hapmap];0.89[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	nsv832838	chr14:79306627-79445382	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	nsv917249	chr14:79388181-79574717	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1041991	chr14:79394408-79644886	Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1037112	chr14:79412455-79527656	Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv931412	chr14:79420297-79928269	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:79416800-79426200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr14:79416800-79436000	Weak transcription	Brain Inferior Temporal Lobe	brain

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