Variant report

Variant	rs10879809
Chromosome Location	chr12:74974259-74974260
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10161518	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10785123	1.00[EUR][1000 genomes]
rs10785134	0.86[ASN][1000 genomes]
rs10879802	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10879803	0.82[CHB][hapmap];0.91[JPT][hapmap];0.83[ASN][1000 genomes]
rs10879804	0.86[ASN][1000 genomes]
rs11180076	1.00[EUR][1000 genomes]
rs11180077	1.00[CEU][hapmap];0.92[CHB][hapmap];0.96[JPT][hapmap];1.00[EUR][1000 genomes]
rs11180078	1.00[EUR][1000 genomes]
rs11180109	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11180110	0.86[ASN][1000 genomes]
rs12229964	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1493836	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1493838	0.86[ASN][1000 genomes]
rs17113542	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17113809	0.91[ASN][1000 genomes]
rs2001937	1.00[CEU][hapmap];0.91[CHB][hapmap];0.96[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2613893	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];1.00[EUR][1000 genomes]
rs2641479	0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs2934409	0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs56778725	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59815789	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61057044	1.00[EUR][1000 genomes]
rs6582223	0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs66962944	1.00[EUR][1000 genomes]
rs68019310	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7138203	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72652868	1.00[EUR][1000 genomes]
rs7301245	0.86[ASN][1000 genomes]
rs7303168	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7968406	1.00[EUR][1000 genomes]
rs7980550	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1039468	chr12:74080586-75000246	Weak transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv899293	chr12:74835107-74995760	Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv899295	chr12:74854750-74984992	Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
4	nsv899296	chr12:74880668-74974630	Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:74973400-74980000	Weak transcription	Brain Cingulate Gyrus	brain
2	chr12:74973800-74974600	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr12:74973800-74978400	Weak transcription	Brain Hippocampus Middle	brain
4	chr12:74974000-74974800	Enhancers	Brain Germinal Matrix	brain
5	chr12:74974200-74975400	Enhancers	Stomach Mucosa	stomach

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