Variant report

Variant	rs12402161
Chromosome Location	chr1:192020218-192020219
allele	G/T
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:59)

rs_ID	r²[population]
rs10754002	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10801089	0.84[EUR][1000 genomes]
rs10921064	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10921069	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10921070	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10921071	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10921072	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10921077	0.84[EUR][1000 genomes]
rs10921079	0.84[EUR][1000 genomes]
rs11589341	0.84[EUR][1000 genomes]
rs11799436	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12027699	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12040845	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12121382	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12406175	0.83[EUR][1000 genomes]
rs12738909	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12739091	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12744851	0.84[EUR][1000 genomes]
rs12755445	0.84[EUR][1000 genomes]
rs12760188	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1832705	0.81[ASN][1000 genomes]
rs2999581	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2999582	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2999585	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2999586	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2999587	0.86[EUR][1000 genomes]
rs2999601	0.83[EUR][1000 genomes]
rs3012199	0.84[EUR][1000 genomes]
rs4073230	0.84[EUR][1000 genomes]
rs4271194	0.83[EUR][1000 genomes]
rs4287158	0.81[EUR][1000 genomes]
rs4300202	0.84[EUR][1000 genomes]
rs4348703	0.82[EUR][1000 genomes]
rs4360506	0.83[EUR][1000 genomes]
rs4393139	0.84[EUR][1000 genomes]
rs4399135	0.84[EUR][1000 genomes]
rs4403613	0.81[EUR][1000 genomes]
rs4443869	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4506444	0.81[EUR][1000 genomes]
rs4511094	0.84[EUR][1000 genomes]
rs4578197	0.84[EUR][1000 genomes]
rs4585961	0.84[EUR][1000 genomes]
rs4620521	0.81[EUR][1000 genomes]
rs4657772	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4657779	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4657922	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61819040	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6655932	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6669977	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6695560	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7349065	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7367454	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7416831	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7418526	0.81[ASN][1000 genomes]
rs7553426	0.81[EUR][1000 genomes]
rs7553774	0.81[EUR][1000 genomes]
rs9427815	0.81[ASN][1000 genomes]
rs9427816	0.82[ASN][1000 genomes]
rs946962	0.82[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007060	chr1:191577303-192141825	Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv430047	chr1:191811587-192203678	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv872826	chr1:191868441-192074894	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv872827	chr1:191928253-192033140	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv832137	chr1:191931044-192069133	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv548645	chr1:191953675-192040576	Enhancers Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv548646	chr1:191955405-192040576	Enhancers Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv548647	chr1:191962527-192040576	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
9	nsv872828	chr1:191975137-192074894	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv548648	chr1:192001465-192096277	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:192019600-192020600	Enhancers	Colon Smooth Muscle	Colon
2	chr1:192020200-192020600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr1:192020200-192020600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr1:192020200-192020800	Enhancers	Primary hematopoietic stem cells short term culture	blood
5	chr1:192020200-192020800	Enhancers	Dnd41	blood
6	chr1:192020200-192020800	Enhancers	Monocytes-CD14+_RO01746	blood
7	chr1:192020200-192021000	Enhancers	Muscle Satellite Cultured Cells	--

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