Variant report

Variant	rs4856890
Chromosome Location	chr3:67797782-67797783
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM19A1-1	chr3:67797195-67799050	NONHSAT090319

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10428091	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10428122	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11127733	0.96[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs12330732	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13067333	0.98[ASN][1000 genomes]
rs1459912	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1459913	0.90[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs1459918	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1459919	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1585384	0.90[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs1599209	0.96[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2125810	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2125812	0.88[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs2125813	0.96[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs2169110	0.94[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs2169111	0.92[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs2169113	0.98[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs2362440	0.89[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2362449	0.96[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs34134719	0.94[ASN][1000 genomes]
rs34520011	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35194427	0.94[ASN][1000 genomes]
rs4350935	0.94[ASN][1000 genomes]
rs4856889	0.98[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs6768970	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6795108	0.84[ASN][1000 genomes]
rs6798796	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs68005467	0.92[ASN][1000 genomes]
rs7618120	0.95[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs7642815	0.92[ASN][1000 genomes]
rs9824545	0.91[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs9833922	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9855740	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9857889	0.93[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs9871660	0.87[ASN][1000 genomes]
rs9871777	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs993597	0.96[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	nsv470638	chr3:67367341-67814738	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	esv3359258	chr3:67589615-67828274	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv1002010	chr3:67785913-68312064	Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:67721400-67800400	Weak transcription	Left Ventricle	heart
2	chr3:67788000-67802800	Weak transcription	Right Ventricle	heart
3	chr3:67789400-67799600	Weak transcription	Aorta	Aorta
4	chr3:67795000-67797800	Weak transcription	Ovary	ovary
5	chr3:67795400-67800800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr3:67795800-67801000	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr3:67796000-67799600	Weak transcription	Primary T cells from cord blood	blood
8	chr3:67796800-67800600	Weak transcription	Duodenum Smooth Muscle	Duodenum

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