Variant report

Variant	rs9289661
Chromosome Location	chr3:143169165-143169166
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1525007	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1525009	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1723033	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2140765	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66623546	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs708484	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73144723	1.00[ASN][1000 genomes]
rs838599	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs838613	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs838616	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs838618	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs838620	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs838622	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs838623	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs838627	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs838630	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs838634	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs838635	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs838636	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs838637	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs838643	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs838644	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs838646	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs838648	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs838649	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs865710	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	esv2757894	chr3:142992697-143285979	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	esv2759184	chr3:142992697-143285979	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	esv3360578	chr3:143166912-143170010	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases
5	esv2653887	chr3:143167070-143169380	Weak transcription	n/a	n/a	inside rSNPs	diseases
6	esv3422626	chr3:143167087-143169835	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases
7	nsv822273	chr3:143167212-143169573	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases
8	esv3358069	chr3:143167312-143170010	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
9	nsv513082	chr3:143167429-143169409	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143155800-143169800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:143159600-143200800	Weak transcription	Esophagus	oesophagus
3	chr3:143162600-143169800	Weak transcription	Brain Substantia Nigra	brain
4	chr3:143163400-143181400	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr3:143163400-143196800	Weak transcription	Stomach Smooth Muscle	stomach
6	chr3:143163600-143169800	Weak transcription	Brain Hippocampus Middle	brain
7	chr3:143163600-143184000	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr3:143163600-143187000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr3:143163800-143170600	Weak transcription	Fetal Lung	lung
10	chr3:143163800-143183600	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr3:143163800-143196400	Weak transcription	Fetal Stomach	stomach
12	chr3:143163800-143203400	Weak transcription	Ovary	ovary
13	chr3:143164000-143175000	Weak transcription	Primary T cells from cord blood	blood
14	chr3:143164600-143169400	Weak transcription	GM12878-XiMat	blood
15	chr3:143164600-143169600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr3:143164600-143169600	Weak transcription	Primary B cells from cord blood	blood
17	chr3:143164800-143169600	Weak transcription	Primary monocytes fromperipheralblood	blood
18	chr3:143164800-143169600	Weak transcription	Monocytes-CD14+_RO01746	blood

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