Variant report

Variant	rs16843634
Chromosome Location	chr3:100999839-100999840
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:100997650..101000246-chr3:101010529..101013329,2	MCF-7	breast:

Extended variants
information (count: 111 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:108)

rs_ID	r²[population]
rs10451923	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10511189	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1520654	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16843627	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16843699	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16843817	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17487	0.94[ASN][1000 genomes]
rs1986294	0.94[ASN][1000 genomes]
rs2271972	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2449822	1.00[ASN][1000 genomes]
rs2460724	0.83[ASN][1000 genomes]
rs35902489	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3732893	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3773915	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3773917	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3773918	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4553955	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs475521	0.97[ASN][1000 genomes]
rs476090	1.00[ASN][1000 genomes]
rs476491	0.97[ASN][1000 genomes]
rs478173	0.99[ASN][1000 genomes]
rs479522	1.00[ASN][1000 genomes]
rs479723	1.00[ASN][1000 genomes]
rs481809	1.00[ASN][1000 genomes]
rs482055	0.93[ASN][1000 genomes]
rs482436	1.00[ASN][1000 genomes]
rs482976	0.99[ASN][1000 genomes]
rs483947	0.97[ASN][1000 genomes]
rs485130	1.00[ASN][1000 genomes]
rs489455	0.94[ASN][1000 genomes]
rs500480	0.97[ASN][1000 genomes]
rs501702	0.94[ASN][1000 genomes]
rs505037	0.97[ASN][1000 genomes]
rs512242	0.80[ASN][1000 genomes]
rs513188	0.94[ASN][1000 genomes]
rs513994	1.00[ASN][1000 genomes]
rs515307	1.00[ASN][1000 genomes]
rs516312	1.00[ASN][1000 genomes]
rs517698	0.94[ASN][1000 genomes]
rs520879	0.97[ASN][1000 genomes]
rs522749	0.88[ASN][1000 genomes]
rs527836	1.00[ASN][1000 genomes]
rs530566	0.97[ASN][1000 genomes]
rs535881	1.00[ASN][1000 genomes]
rs536561	1.00[ASN][1000 genomes]
rs538834	1.00[ASN][1000 genomes]
rs545322	0.94[ASN][1000 genomes]
rs546090	0.94[ASN][1000 genomes]
rs550241	0.97[ASN][1000 genomes]
rs554215	0.94[ASN][1000 genomes]
rs559042	0.97[ASN][1000 genomes]
rs559400	0.93[ASN][1000 genomes]
rs563909	0.94[ASN][1000 genomes]
rs567983	1.00[ASN][1000 genomes]
rs569339	0.97[ASN][1000 genomes]
rs570318	0.94[ASN][1000 genomes]
rs571883	0.97[ASN][1000 genomes]
rs573908	0.94[ASN][1000 genomes]
rs575317	0.94[ASN][1000 genomes]
rs62280607	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62280609	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62280631	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62280633	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62280636	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62280637	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62280663	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62280664	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62280665	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62280669	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62280670	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62280671	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62280673	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62280674	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62280675	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62280719	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62280720	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62280721	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62280722	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62280725	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62280726	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62280728	0.84[EUR][1000 genomes]
rs62280731	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62280733	0.84[EUR][1000 genomes]
rs62280735	0.84[EUR][1000 genomes]
rs62280737	0.84[EUR][1000 genomes]
rs62280745	0.84[EUR][1000 genomes]
rs62282871	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62282872	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62282873	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62282875	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62282885	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282886	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62282887	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62282888	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62282889	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62282890	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62282892	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6441595	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6796058	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6798685	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs693428	0.99[ASN][1000 genomes]
rs72932462	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7611378	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7621506	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7622461	0.84[EUR][1000 genomes]
rs7632064	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7634592	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9790303	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931417	chr3:100547347-101183844	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv877222	chr3:100715576-101038297	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	esv3439278	chr3:100936513-101162102	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100958800-101012800	Weak transcription	Left Ventricle	heart
2	chr3:100989400-101018600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr3:100994800-101008800	Weak transcription	Primary T cells from cord blood	blood
4	chr3:100997400-101000600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:100999000-101007200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr3:100999200-101000200	Weak transcription	Fetal Lung	lung
7	chr3:100999200-101000200	Weak transcription	HSMMtube	muscle
8	chr3:100999200-101000400	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr3:100999200-101000400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr3:100999200-101014600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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