Variant report

Variant	rs4709031
Chromosome Location	chr6:164405379-164405380
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10484512	0.97[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10484513	0.96[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10484514	0.81[EUR][1000 genomes]
rs10484515	0.96[AFR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10945939	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10945940	0.97[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10945941	0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10945942	0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10945944	0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10945945	0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12191111	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13193552	0.81[EUR][1000 genomes]
rs1545107	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16895846	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1756	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34021940	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34091550	0.98[AFR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34413611	0.98[AFR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34561573	0.98[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34727935	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs34994154	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35668088	0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4499903	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4709030	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4709799	0.93[AFR][1000 genomes];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4709800	0.97[AFR][1000 genomes];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4709802	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4709803	0.87[ASN][1000 genomes]
rs4709804	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs473823	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs491901	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs551475	0.89[EUR][1000 genomes]
rs616299	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs617616	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62435513	0.95[AFR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62435541	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs634032	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs656371	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs680187	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs717822	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7451221	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7751193	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9356176	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9364711	0.82[EUR][1000 genomes];0.85[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	nsv1018860	chr6:163939347-164532579	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv538526	chr6:163939347-164532579	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv1026707	chr6:164188210-164749206	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv538527	chr6:164188210-164749206	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv830858	chr6:164296054-164455743	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv5582	chr6:164390353-164405727	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:164393800-164413800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:164399000-164405400	Weak transcription	Pancreas	Pancrea
3	chr6:164404400-164405600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:164404600-164405400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr6:164404600-164405400	Enhancers	Fetal Heart	heart
6	chr6:164404600-164405800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr6:164404600-164405800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
8	chr6:164404800-164406400	Enhancers	Primary B cells from peripheral blood	blood
9	chr6:164404800-164406400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
10	chr6:164404800-164406600	Enhancers	Primary hematopoietic stem cells	blood
11	chr6:164404800-164406800	Weak transcription	Ovary	ovary
12	chr6:164404800-164407000	Weak transcription	Left Ventricle	heart
13	chr6:164404800-164407000	Weak transcription	Right Atrium	heart
14	chr6:164405000-164405400	Enhancers	Primary T helper cells fromperipheralblood	blood
15	chr6:164405000-164405400	Flanking Active TSS	Brain Cingulate Gyrus	brain
16	chr6:164405000-164405800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
17	chr6:164405000-164406200	Enhancers	GM12878-XiMat	blood
18	chr6:164405000-164406400	Enhancers	Fetal Brain Male	brain
19	chr6:164405000-164407000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr6:164405000-164407000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr6:164405000-164407400	Enhancers	Primary hematopoietic stem cells short term culture	blood
22	chr6:164405200-164405400	Enhancers	Fetal Brain Female	brain
23	chr6:164405200-164405600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr6:164405200-164405800	Enhancers	Primary B cells from cord blood	blood
25	chr6:164405200-164405800	Enhancers	Brain Anterior Caudate	brain
26	chr6:164405200-164405800	Enhancers	Brain Substantia Nigra	brain
27	chr6:164405200-164406000	Enhancers	Brain Germinal Matrix	brain
28	chr6:164405200-164406000	Enhancers	Brain Hippocampus Middle	brain
29	chr6:164405200-164406200	Enhancers	Pancreatic Islets	Pancreatic Islet
30	chr6:164405200-164406800	Enhancers	NH-A	brain
31	chr6:164405200-164407000	Enhancers	Cortex derived primary cultured neurospheres	brain

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