Variant report

Variant	rs11140289
Chromosome Location	chr9:86521428-86521429
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10114889	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10115699	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10125715	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10868068	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10868070	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10868071	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10868080	0.80[EUR][1000 genomes]
rs13290882	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13296528	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1831757	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1889113	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1982151	0.82[EUR][1000 genomes]
rs2576362	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2780103	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs296883	0.84[AMR][1000 genomes]
rs296887	0.83[EUR][1000 genomes]
rs296888	0.83[EUR][1000 genomes]
rs296889	0.83[EUR][1000 genomes]
rs296890	0.82[EUR][1000 genomes]
rs296893	0.83[EUR][1000 genomes]
rs4147132	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4147133	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6559751	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6559752	0.88[AMR][1000 genomes]
rs7020300	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7033292	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7045126	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7853254	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs796003	0.83[EUR][1000 genomes]
rs796004	0.83[EUR][1000 genomes]
rs796007	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs963459	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv469859	chr9:86398152-86587957	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats 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 miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv482641	chr9:86398152-86587957	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	esv2758192	chr9:86414024-86603602	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
4	esv2759701	chr9:86414024-86603602	Enhancers Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
5	nsv8541	chr9:86469723-86593758	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
6	nsv438108	chr9:86488586-86542206	Active TSS Flanking Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases
7	nsv968713	chr9:86517820-86522655	Weak transcription Enhancers Strong transcription ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:86461600-86535400	Weak transcription	Fetal Intestine Small	intestine
2	chr9:86461600-86535400	Weak transcription	Ovary	ovary
3	chr9:86462200-86535200	Weak transcription	Fetal Brain Female	brain
4	chr9:86462600-86535200	Weak transcription	Brain Anterior Caudate	brain
5	chr9:86481000-86535800	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr9:86491000-86535200	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr9:86491200-86535200	Weak transcription	Primary hematopoietic stem cells	blood
8	chr9:86496000-86535000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr9:86496400-86533000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr9:86499400-86535000	Weak transcription	Fetal Kidney	kidney
11	chr9:86499800-86523200	Weak transcription	Fetal Thymus	thymus
12	chr9:86500000-86534800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr9:86500200-86535200	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr9:86500200-86535200	Weak transcription	Stomach Smooth Muscle	stomach
15	chr9:86500200-86535600	Weak transcription	Lung	lung
16	chr9:86501200-86521600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr9:86502000-86532400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr9:86502600-86535000	Weak transcription	Fetal Lung	lung
19	chr9:86506400-86534800	Weak transcription	Pancreas	Pancrea
20	chr9:86508200-86535600	Weak transcription	Esophagus	oesophagus
21	chr9:86512400-86535400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr9:86512600-86535400	Weak transcription	Placenta	Placenta
23	chr9:86513200-86534800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr9:86516200-86535000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr9:86517400-86535200	Weak transcription	Primary B cells from peripheral blood	blood
26	chr9:86517600-86535000	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr9:86518200-86530800	Weak transcription	Spleen	Spleen
28	chr9:86518800-86523800	Weak transcription	Primary T cells from cord blood	blood
29	chr9:86518800-86526400	Weak transcription	Fetal Intestine Large	intestine
30	chr9:86518800-86535000	Weak transcription	Primary B cells from cord blood	blood
31	chr9:86518800-86535000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr9:86518800-86535200	Weak transcription	Thymus	Thymus
33	chr9:86519000-86535000	Weak transcription	Fetal Muscle Leg	muscle
34	chr9:86519000-86535400	Weak transcription	Fetal Stomach	stomach
35	chr9:86520000-86533000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr9:86520400-86535400	Weak transcription	Skeletal Muscle Female	skeletal muscle

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