Variant report

Variant	rs345444
Chromosome Location	chr13:92442626-92442627
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 91 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs12873046	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1332090	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1332091	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs1394888	0.86[YRI][hapmap]
rs1505565	0.88[YRI][hapmap]
rs168217	1.00[CEU][hapmap];0.85[GIH][hapmap];0.91[TSI][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs168277	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs168278	0.85[EUR][1000 genomes]
rs168279	0.86[EUR][1000 genomes]
rs173141	0.85[EUR][1000 genomes]
rs1827755	0.86[YRI][hapmap]
rs1831564	0.83[LWK][hapmap];0.89[YRI][hapmap]
rs1847714	0.83[EUR][1000 genomes]
rs1847715	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs1847716	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs1847717	0.87[CEU][hapmap];0.87[YRI][hapmap];0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs1854972	0.80[LWK][hapmap];0.90[YRI][hapmap]
rs1854976	0.83[EUR][1000 genomes]
rs1854977	1.00[CEU][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1854978	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs1854979	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs189376	0.81[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs1929922	0.81[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs1929923	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs1929924	0.83[EUR][1000 genomes]
rs1929925	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs193208	0.82[CEU][hapmap]
rs1988500	0.83[LWK][hapmap];0.89[YRI][hapmap]
rs2352028	0.87[CEU][hapmap];0.83[LWK][hapmap];0.83[TSI][hapmap];0.89[YRI][hapmap]
rs2352029	0.87[CEU][hapmap];0.83[LWK][hapmap];0.83[TSI][hapmap];0.89[YRI][hapmap]
rs2352030	0.87[CEU][hapmap];0.81[YRI][hapmap];0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs2352202	0.85[LWK][hapmap];0.89[YRI][hapmap]
rs2938868	0.87[CEU][hapmap];0.83[LWK][hapmap];0.83[TSI][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs2938869	0.87[CEU][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs2938873	0.82[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs2938874	0.87[CEU][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs2989990	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2989991	0.82[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs2989992	0.81[EUR][1000 genomes]
rs2989993	0.82[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs2989994	0.82[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs2989995	0.86[CEU][hapmap];0.89[YRI][hapmap];0.84[EUR][1000 genomes]
rs2989996	0.82[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs2989997	0.80[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs2989998	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs2990003	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs2990004	0.87[CEU][hapmap];0.89[YRI][hapmap]
rs2990007	0.87[CEU][hapmap];0.83[LWK][hapmap];0.83[TSI][hapmap];0.86[YRI][hapmap]
rs3012005	0.83[EUR][1000 genomes]
rs342672	0.85[EUR][1000 genomes]
rs342673	0.81[ASW][hapmap];0.93[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MKK][hapmap];0.91[TSI][hapmap];0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs342696	0.93[CEU][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs342701	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs342704	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs342706	0.87[CEU][hapmap]
rs342707	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs342708	1.00[CEU][hapmap];0.94[TSI][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs345443	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs345445	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs345449	0.86[EUR][1000 genomes]
rs345450	0.84[EUR][1000 genomes]
rs386885	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs400118	0.81[CEU][hapmap];0.85[EUR][1000 genomes]
rs439700	0.84[EUR][1000 genomes]
rs457306	1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs459137	0.85[EUR][1000 genomes]
rs464160	0.87[CEU][hapmap];0.89[YRI][hapmap]
rs464167	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs528366	0.87[CEU][hapmap];0.83[TSI][hapmap]
rs535973	0.87[CEU][hapmap];0.83[LWK][hapmap];0.83[TSI][hapmap];0.89[YRI][hapmap]
rs539065	0.86[EUR][1000 genomes]
rs543718	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs556483	0.80[EUR][1000 genomes]
rs556722	0.86[EUR][1000 genomes]
rs560244	0.86[EUR][1000 genomes]
rs570196	0.86[EUR][1000 genomes]
rs7336461	0.82[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs7991916	1.00[CEU][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9515975	0.83[LWK][hapmap];0.89[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049382	chr13:92024240-92521180	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv541873	chr13:92024240-92521180	Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv2753383	chr13:92226599-92462699	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv529268	chr13:92267310-92531263	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv456065	chr13:92383193-92507887	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv562719	chr13:92383193-92507887	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv948820	chr13:92408505-92519053	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv524271	chr13:92419769-92501664	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv562720	chr13:92419769-92501664	Enhancers Active TSS Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv1036226	chr13:92421721-92501284	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv1053048	chr13:92421721-92501558	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	nsv1053597	chr13:92421721-92502205	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:92442000-92443800	Enhancers	Brain Germinal Matrix	brain
2	chr13:92442600-92443600	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr13:92442600-92443600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

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