Variant report

Variant	rs2789934
Chromosome Location	chr1:223128685-223128686
allele	A/G
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:29)

rs_ID	r²[population]
rs11487819	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2378617	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2378618	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2378619	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2609359	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2609366	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2609371	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2789910	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2789924	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2789929	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2789931	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2789933	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2789937	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2789945	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2789953	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2789954	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2789957	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2789958	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2789972	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34188904	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34620158	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34673329	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4317816	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4509582	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4846783	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61837491	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs67420224	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs728006	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs946506	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999185	chr1:222500725-223278032	Strong transcription Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	nsv535304	chr1:222500725-223278032	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv1012537	chr1:222755091-223512243	Weak transcription Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
4	nsv1014896	chr1:223070446-223327185	Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv873207	chr1:223078802-223292632	Genic enhancers Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	esv1828950	chr1:223111708-223132433	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:223102200-223130800	Weak transcription	Fetal Brain Male	brain
2	chr1:223105000-223128800	Weak transcription	Ovary	ovary
3	chr1:223114200-223129000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr1:223114200-223130600	Weak transcription	Left Ventricle	heart
5	chr1:223114800-223129200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr1:223116800-223130400	Weak transcription	Liver	Liver
7	chr1:223116800-223130600	Weak transcription	Brain Substantia Nigra	brain
8	chr1:223116800-223135800	Weak transcription	Fetal Intestine Small	intestine
9	chr1:223117000-223129200	Weak transcription	Brain Anterior Caudate	brain
10	chr1:223117000-223135000	Weak transcription	Primary B cells from cord blood	blood
11	chr1:223117000-223138400	Weak transcription	Primary B cells from peripheral blood	blood
12	chr1:223117200-223133800	Weak transcription	Lung	lung
13	chr1:223119200-223131400	Weak transcription	Right Ventricle	heart
14	chr1:223124400-223130400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr1:223125000-223131000	Weak transcription	Stomach Mucosa	stomach
16	chr1:223126600-223129600	Enhancers	Colon Smooth Muscle	Colon
17	chr1:223127000-223129200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr1:223127800-223128800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr1:223127800-223129000	Enhancers	Fetal Stomach	stomach
20	chr1:223128000-223129000	Weak transcription	Fetal Lung	lung
21	chr1:223128000-223129800	Enhancers	Fetal Muscle Leg	muscle
22	chr1:223128600-223129400	Weak transcription	Rectal Smooth Muscle	rectum
23	chr1:223128600-223129600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

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