Variant report

Variant	rs1349222
Chromosome Location	chr2:142871813-142871814
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	chr2:142870857..142873043-chr2:142887143..142889170,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168702	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs1001629	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1011862	0.87[ASN][1000 genomes]
rs10173643	0.82[ASN][1000 genomes]
rs10186258	0.89[ASN][1000 genomes]
rs10203924	0.89[ASN][1000 genomes]
rs10803487	0.81[ASN][1000 genomes]
rs10803489	0.89[ASN][1000 genomes]
rs10928133	0.81[ASN][1000 genomes]
rs10928134	0.81[ASN][1000 genomes]
rs11677754	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11683745	0.89[ASN][1000 genomes]
rs11688838	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11692364	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12105566	0.81[ASN][1000 genomes]
rs12105584	0.81[ASN][1000 genomes]
rs12618881	0.81[ASN][1000 genomes]
rs12621782	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12988578	0.88[EUR][1000 genomes]
rs12998297	0.87[EUR][1000 genomes]
rs13000270	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13036224	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1349219	0.89[ASN][1000 genomes]
rs1349220	0.89[ASN][1000 genomes]
rs1349221	0.89[ASN][1000 genomes]
rs1375603	0.82[ASN][1000 genomes]
rs1375609	0.89[ASN][1000 genomes]
rs1375613	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1449475	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1449480	0.82[ASN][1000 genomes]
rs1449481	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1449485	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1449490	0.86[EUR][1000 genomes]
rs1449495	0.87[EUR][1000 genomes]
rs1449498	0.81[ASN][1000 genomes]
rs1449499	0.81[ASN][1000 genomes]
rs1449501	0.81[ASN][1000 genomes]
rs1449503	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1449504	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17824487	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1868544	0.86[EUR][1000 genomes]
rs1900933	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1900934	0.81[ASN][1000 genomes]
rs1900935	0.89[ASN][1000 genomes]
rs2167053	0.87[ASN][1000 genomes]
rs2197910	0.82[ASN][1000 genomes]
rs2218734	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34392492	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4662370	0.81[ASN][1000 genomes]
rs4662373	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4662389	0.87[ASN][1000 genomes]
rs62155598	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62157627	0.87[EUR][1000 genomes]
rs6712994	0.88[ASN][1000 genomes]
rs6754907	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7558803	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7565655	0.89[ASN][1000 genomes]
rs7598886	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7605112	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7609479	0.82[ASN][1000 genomes]
rs9287332	0.89[ASN][1000 genomes]
rs993935	0.81[ASN][1000 genomes]
rs9941495	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9941695	0.81[ASN][1000 genomes]
rs997123	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9973706	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv997274	chr2:142760393-143599193	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv526107	chr2:142768518-142884248	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv875254	chr2:142833327-142931146	Bivalent/Poised TSS Active TSS Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1006247	chr2:142851056-143289465	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:142870000-142878400	Weak transcription	Brain Hippocampus Middle	brain
2	chr2:142870800-142877400	Weak transcription	Brain Anterior Caudate	brain
3	chr2:142871000-142874600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr2:142871400-142873600	Weak transcription	Brain Substantia Nigra	brain
5	chr2:142871800-142872400	Weak transcription	Cortex derived primary cultured neurospheres	brain

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