Variant report

Variant	rs12631840
Chromosome Location	chr3:115916431-115916432
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZBTB20-3	chr3:115916157-115916457	uc_119_-
2	lnc-GAP43-11	chr3:115916157-115916457	uc_119_+

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs12631903	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13078076	0.80[ASN][1000 genomes]
rs1461114	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1461132	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1461134	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1468001	0.98[ASN][1000 genomes]
rs1468003	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1898	0.90[ASN][1000 genomes]
rs1947689	0.98[ASN][1000 genomes]
rs2864074	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2864075	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56138725	0.95[ASN][1000 genomes]
rs6438303	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6792060	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6807792	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7618443	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7638493	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7640143	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7641198	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7644082	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9826725	0.95[ASN][1000 genomes]
rs9834017	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9834315	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9834589	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9834897	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9854764	0.82[AFR][1000 genomes]
rs9870541	0.92[ASN][1000 genomes]
rs9875609	0.97[ASN][1000 genomes]
rs998806	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs998807	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][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	nsv1012260	chr3:115680931-115935968	Enhancers Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	esv2755046	chr3:115818840-115942952	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv877360	chr3:115916171-116023990	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:115907800-115919800	Weak transcription	Brain Angular Gyrus	brain
2	chr3:115911400-115916800	Weak transcription	Brain Anterior Caudate	brain
3	chr3:115911400-115919400	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr3:115911400-115919400	Weak transcription	Brain Substantia Nigra	brain
5	chr3:115912800-115919600	Weak transcription	Brain Cingulate Gyrus	brain
6	chr3:115916400-115917200	Enhancers	Colon Smooth Muscle	Colon

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