Variant report

Variant	rs13200673
Chromosome Location	chr6:13097308-13097309
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs11961962	0.95[EUR][1000 genomes]
rs13190774	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13192747	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13193716	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13204304	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13205551	0.92[EUR][1000 genomes]
rs13205960	0.92[EUR][1000 genomes]
rs13209107	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13215349	0.89[EUR][1000 genomes]
rs13218974	0.86[EUR][1000 genomes]
rs13219842	0.92[EUR][1000 genomes]
rs1937766	0.81[ASN][1000 genomes]
rs34054185	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34267578	0.89[EUR][1000 genomes]
rs34381599	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34952336	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35229766	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35273948	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35305875	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35776201	0.89[EUR][1000 genomes]
rs36119782	0.94[EUR][1000 genomes]
rs4132044	0.86[EUR][1000 genomes]
rs4361612	0.90[EUR][1000 genomes]
rs4373361	0.92[EUR][1000 genomes]
rs4379290	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4580848	0.85[EUR][1000 genomes]
rs4615376	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4711908	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4711909	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4711910	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4715064	0.88[EUR][1000 genomes]
rs4715072	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4715082	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6458616	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6458641	0.81[ASN][1000 genomes]
rs6921616	0.83[ASN][1000 genomes]
rs6932757	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7738252	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7743585	0.89[EUR][1000 genomes]
rs7750023	0.89[EUR][1000 genomes]
rs7750099	0.89[EUR][1000 genomes]
rs7750120	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7756776	0.89[EUR][1000 genomes]
rs7762827	0.94[EUR][1000 genomes]
rs7775103	0.89[EUR][1000 genomes]
rs9296592	0.94[EUR][1000 genomes]
rs9463377	0.88[EUR][1000 genomes]
rs9463408	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9463423	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9473285	0.89[EUR][1000 genomes]
rs9473354	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9473370	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9473427	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9473436	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3521000	chr6:12561306-13128519	Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv3521001	chr6:12561306-13128519	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv817350	chr6:12922859-13137655	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv600992	chr6:12961922-13218549	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13078600-13101400	Weak transcription	Lung	lung
2	chr6:13080000-13102000	Weak transcription	Fetal Brain Female	brain
3	chr6:13080000-13105200	Weak transcription	Right Atrium	heart
4	chr6:13089000-13102000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr6:13089800-13097800	Weak transcription	Left Ventricle	heart
6	chr6:13091000-13099000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr6:13091600-13099200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr6:13093000-13097800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr6:13094400-13097600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr6:13094800-13099800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr6:13095000-13099800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr6:13095000-13099800	Enhancers	Fetal Heart	heart
13	chr6:13095600-13097400	Weak transcription	Stomach Smooth Muscle	stomach
14	chr6:13096000-13097800	Enhancers	Fetal Kidney	kidney
15	chr6:13096200-13097400	Weak transcription	Brain Cingulate Gyrus	brain
16	chr6:13096200-13098600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
17	chr6:13096200-13101800	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr6:13096200-13103200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr6:13096400-13102200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr6:13096600-13098000	Enhancers	Brain Angular Gyrus	brain
21	chr6:13096600-13098800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr6:13096800-13097800	Weak transcription	Aorta	Aorta
23	chr6:13096800-13097800	Enhancers	Colon Smooth Muscle	Colon
24	chr6:13096800-13100400	Enhancers	Brain Anterior Caudate	brain
25	chr6:13097000-13097800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr6:13097000-13098000	Enhancers	Cortex derived primary cultured neurospheres	brain
27	chr6:13097000-13098400	Enhancers	Brain Hippocampus Middle	brain
28	chr6:13097200-13106600	Weak transcription	Primary hematopoietic stem cells	blood

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