Variant report

Variant	rs56339924
Chromosome Location	chr1:225357846-225357847
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 127 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:121)

rs_ID	r²[population]
rs10158933	0.81[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs10915779	0.90[EUR][1000 genomes]
rs12561993	0.81[ASN][1000 genomes]
rs12562085	0.89[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs12563033	0.81[ASN][1000 genomes]
rs12563286	0.89[ASN][1000 genomes]
rs12563857	0.81[ASN][1000 genomes]
rs12565401	0.86[ASN][1000 genomes]
rs12565823	0.86[ASN][1000 genomes]
rs12568142	0.81[ASN][1000 genomes]
rs12568753	0.88[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs1480104	0.86[ASN][1000 genomes]
rs1506070	0.81[ASN][1000 genomes]
rs1506071	0.81[EUR][1000 genomes]
rs1506072	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1506074	0.86[EUR][1000 genomes]
rs1542571	0.91[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs1587980	0.81[ASN][1000 genomes]
rs1600532	0.86[ASN][1000 genomes]
rs16843950	0.86[ASN][1000 genomes]
rs16843956	0.86[ASN][1000 genomes]
rs16843988	0.86[ASN][1000 genomes]
rs16843997	0.86[ASN][1000 genomes]
rs16844005	0.86[ASN][1000 genomes]
rs16844334	0.86[ASN][1000 genomes]
rs16844355	0.86[ASN][1000 genomes]
rs16844377	0.87[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs16844400	0.89[ASN][1000 genomes]
rs1832540	0.87[EUR][1000 genomes]
rs1905113	0.81[ASN][1000 genomes]
rs1934203	0.87[ASN][1000 genomes]
rs2086368	0.86[ASN][1000 genomes]
rs2199832	0.88[ASN][1000 genomes]
rs2449273	0.81[ASN][1000 genomes]
rs2449274	0.81[ASN][1000 genomes]
rs2449276	0.81[ASN][1000 genomes]
rs2449280	0.81[ASN][1000 genomes]
rs2449281	0.81[EUR][1000 genomes]
rs2449304	0.83[EUR][1000 genomes]
rs2449311	0.81[ASN][1000 genomes]
rs2449313	0.81[ASN][1000 genomes]
rs2449315	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2456335	0.83[ASN][1000 genomes]
rs2456336	0.83[EUR][1000 genomes]
rs2456339	0.81[ASN][1000 genomes]
rs2456340	0.81[ASN][1000 genomes]
rs2456349	0.81[EUR][1000 genomes]
rs2489324	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2501100	0.86[EUR][1000 genomes]
rs2501101	0.86[EUR][1000 genomes]
rs2501110	0.81[EUR][1000 genomes]
rs2501120	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2501147	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2501151	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs28502629	0.80[AFR][1000 genomes]
rs2939363	0.81[EUR][1000 genomes]
rs3101904	0.90[EUR][1000 genomes]
rs3101907	0.83[ASN][1000 genomes]
rs3101908	0.83[ASN][1000 genomes]
rs3101910	0.82[EUR][1000 genomes]
rs3101915	0.86[ASN][1000 genomes]
rs3101916	0.90[EUR][1000 genomes]
rs3101917	0.90[EUR][1000 genomes]
rs3101919	0.86[ASN][1000 genomes]
rs3102114	0.83[ASN][1000 genomes]
rs3102115	0.90[EUR][1000 genomes]
rs3105549	0.83[ASN][1000 genomes]
rs3105555	0.83[ASN][1000 genomes]
rs3105564	0.90[EUR][1000 genomes]
rs3105570	0.83[ASN][1000 genomes]
rs3105571	0.83[ASN][1000 genomes]
rs3105572	0.90[EUR][1000 genomes]
rs3120985	0.86[ASN][1000 genomes]
rs3120989	0.90[EUR][1000 genomes]
rs3120991	0.87[EUR][1000 genomes]
rs3120992	0.83[ASN][1000 genomes]
rs3120993	0.90[EUR][1000 genomes]
rs3128654	0.90[EUR][1000 genomes]
rs3128655	0.90[EUR][1000 genomes]
rs3128657	0.88[EUR][1000 genomes]
rs3128659	0.83[ASN][1000 genomes]
rs3128663	0.83[ASN][1000 genomes]
rs3128664	0.87[EUR][1000 genomes]
rs3128665	0.83[ASN][1000 genomes]
rs3128666	0.90[EUR][1000 genomes]
rs3128667	0.90[EUR][1000 genomes]
rs3128669	0.83[ASN][1000 genomes]
rs3128670	0.83[ASN][1000 genomes]
rs3991317	0.89[ASN][1000 genomes]
rs4342820	0.92[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs55681905	0.86[ASN][1000 genomes]
rs55764147	0.82[EUR][1000 genomes]
rs55876129	0.81[ASN][1000 genomes]
rs55962425	0.81[ASN][1000 genomes]
rs56061128	0.86[ASN][1000 genomes]
rs56107523	0.86[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs58279596	0.88[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs60392992	0.86[ASN][1000 genomes]
rs60692803	0.92[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs61211002	0.90[EUR][1000 genomes]
rs61438284	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6426049	0.87[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs6426051	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6426052	0.93[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs6662231	0.92[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs6683938	0.94[EUR][1000 genomes]
rs6686694	0.86[EUR][1000 genomes]
rs6689915	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6697156	0.81[ASN][1000 genomes]
rs6697382	0.89[EUR][1000 genomes]
rs6700755	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6702733	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6702926	0.95[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs7517625	0.86[ASN][1000 genomes]
rs7521702	0.89[EUR][1000 genomes]
rs7531542	0.81[ASN][1000 genomes]
rs7547639	0.86[ASN][1000 genomes]
rs7548138	0.90[EUR][1000 genomes]
rs769295	0.88[ASN][1000 genomes]
rs973980	0.93[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs995613	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873225	chr1:225162060-225373936	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv998899	chr1:225210813-225496353	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv468205	chr1:225304971-225476025	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv549264	chr1:225304971-225476025	ZNF genes & repeats Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv945672	chr1:225339532-225561349	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv873226	chr1:225347689-225555602	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:225356800-225365200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:225356800-225365200	Weak transcription	Pancreas	Pancrea

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