Variant report

Variant	rs3000179
Chromosome Location	chr1:79880080-79880081
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10493629	0.88[ASN][1000 genomes]
rs11162695	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11162696	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11162697	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12724768	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12732505	0.83[AMR][1000 genomes]
rs12745266	0.80[EUR][1000 genomes]
rs12749113	0.81[AMR][1000 genomes]
rs12749224	0.82[AMR][1000 genomes]
rs1353290	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1389940	0.82[EUR][1000 genomes]
rs1389942	0.81[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.81[EUR][1000 genomes]
rs1389943	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1389944	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1389946	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1389947	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1494857	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17417360	0.83[AMR][1000 genomes]
rs17451181	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1994938	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2029788	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2101800	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2132057	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2860503	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2934868	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2934871	0.82[EUR][1000 genomes]
rs2934873	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2934878	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3000098	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3000101	1.00[CHB][hapmap];0.87[JPT][hapmap];0.81[EUR][1000 genomes]
rs3000110	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3000133	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3000142	0.82[EUR][1000 genomes]
rs3000155	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3000174	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3000175	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3000176	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3000177	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3000178	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3015006	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3015008	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3015013	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3015017	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3015019	0.82[EUR][1000 genomes]
rs3015021	0.80[EUR][1000 genomes]
rs3015022	0.81[EUR][1000 genomes]
rs3015025	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3015098	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3015107	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3015108	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3015120	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs33944981	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs34146004	0.81[AMR][1000 genomes]
rs35676104	0.81[AMR][1000 genomes]
rs35707904	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4414002	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4630085	0.83[AMR][1000 genomes]
rs61767574	0.82[AMR][1000 genomes]
rs66530141	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6661645	0.81[AMR][1000 genomes]
rs6692670	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6699018	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7516261	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7555044	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]

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	nsv870657	chr1:79701220-79890774	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv830337	chr1:79791879-79913241	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv871649	chr1:79807447-79924175	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1004014	chr1:79811049-80042309	Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	esv3380905	chr1:79878980-79897522	Enhancers ZNF genes & repeats Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:79879800-79880400	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell

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