Variant report

Variant	rs16823456
Chromosome Location	chr2:144817071-144817072
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10496955	1.00[ASW][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10496958	0.81[ASW][hapmap];0.87[LWK][hapmap];0.82[MKK][hapmap]
rs12328646	1.00[EUR][1000 genomes]
rs16823430	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16823453	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16823477	1.00[ASW][hapmap];0.82[LWK][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16823483	1.00[ASW][hapmap];0.87[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16823486	0.91[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16823490	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16823495	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16823497	0.83[AFR][1000 genomes]
rs16823498	0.82[AFR][1000 genomes]
rs16823512	0.81[ASW][hapmap];0.87[LWK][hapmap];0.82[MKK][hapmap]
rs16823515	0.81[ASW][hapmap];0.87[LWK][hapmap];0.82[MKK][hapmap]
rs16823539	0.81[ASW][hapmap];0.81[LWK][hapmap]
rs16823544	1.00[TSI][hapmap]
rs16823552	0.81[ASW][hapmap];0.81[LWK][hapmap]
rs16823556	0.81[ASW][hapmap];0.81[LWK][hapmap]
rs16823563	0.81[ASW][hapmap];0.81[LWK][hapmap]
rs16823564	0.81[ASW][hapmap];0.87[LWK][hapmap]
rs16855310	0.82[AFR][1000 genomes]
rs2042997	0.82[AFR][1000 genomes]
rs57517882	1.00[EUR][1000 genomes]
rs58046208	1.00[EUR][1000 genomes]
rs58057530	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59638652	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6430049	1.00[ASW][hapmap];1.00[GIH][hapmap];0.87[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6709167	1.00[ASW][hapmap];0.82[LWK][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6719927	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6732179	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6733058	1.00[ASW][hapmap];0.87[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6736292	1.00[ASW][hapmap];0.82[LWK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6746667	1.00[ASW][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6760118	0.81[ASW][hapmap];0.81[LWK][hapmap]
rs72992116	1.00[EUR][1000 genomes]
rs73006231	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73006237	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73006242	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006264	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006270	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73006274	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73006276	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73006279	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006286	0.82[AFR][1000 genomes]
rs73006287	0.82[AFR][1000 genomes]
rs73006289	0.82[AFR][1000 genomes]
rs73006290	0.82[AFR][1000 genomes]
rs73006297	0.82[AFR][1000 genomes]
rs73006298	0.82[AFR][1000 genomes]
rs7571370	0.81[ASW][hapmap];0.87[LWK][hapmap];0.82[MKK][hapmap]
rs7572418	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs7586117	1.00[EUR][1000 genomes]
rs7595013	0.81[ASW][hapmap];0.81[LWK][hapmap];1.00[TSI][hapmap];0.80[AFR][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	nsv532755	chr2:144631279-145270874	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv1006344	chr2:144657716-145334899	Bivalent Enhancer Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv535951	chr2:144657716-145334899	Enhancers Strong transcription Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv1067624	chr2:144657717-145425705	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv531413	chr2:144657717-145425705	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
6	nsv532756	chr2:144746353-145315596	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
7	nsv1005376	chr2:144803630-144968946	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv1013338	chr2:144806920-144969818	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:144816800-144817200	Enhancers	Cortex derived primary cultured neurospheres	brain

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