Control track and group visibility more selectively below.
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| Base Position |
| Chromosome position in bases. (Clicks here zoom in 3x) |
| Global aggregate |
| Ribosome profiles of initiating ribosomes from all studies |
| Dendritic: Fields 2015 |
| A Regression-Based Analysis of Ribosome-Profiling Data Reveals a Conserved Complexity to Mammalian Translation. (Fields et al. 2015) |
| Epidermis: Sendoel17 |
| Translation from unconventional 5' start sites drives tumour initiation. (Sendoel et al. 2017) |
| MEF & Liver: Gao 2014 |
| Ribosome profiling of initiating ribosomes using lactimidomycin and puromycin from MEF and mouse liver cells (Gao et al. 2014) |
| MEF: Lee 2012 |
| Ribosome profiling of initiating ribosomes from Mouse Embryonic Fibroblasts (MEF) cells treated with lactidomycin. (Lee et al. 2012) |
| myoblasts & myotubes: deKlerk 2015 |
| Ribosome profiling of initiating ribosomes from Mouse C2C12 myoblasts and differentiated myotubes (E. de Klerk et al., 2015) |
| TISs initiation probabilities |
| Initiation probabilities for Mouse TISs (generated from Lee et al, 2012 data) |
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| Global aggregate |
| Ribosome profiles from all studies |
| 3T3:Eichhorn 2014 |
| mRNA destabilization is the dominant effect of mammalian microRNAs by the time substantial repression ensues. (Eichhorn et al. 2014) |
| Adipose: Reid17 |
| Integrative analyses of translatome and transcriptome reveal important translational controls in brown and white adipose regulated by microRNAs. (Reid et al. 2017) |
| brain: Gonzalez 2014 |
| Ribosome profiling of elongating ribosomes from PDGF/Cre brain tumour tissue and normal mouse brain tissue (Gonzalez et al. 2014) |
| Brain:Cho 2015 |
| Multiple repressive mechanisms in the hippocampus during memory formation. (Cho et al. 2015) |
| Brain:Hornstein 2016 |
| Ligation-free ribosome profiling of cell type-specific translation in the brain. (Hornstein et al. 2016) |
| Dendritic: Fields 2015 |
| A Regression-Based Analysis of Ribosome-Profiling Data Reveals a Conserved Complexity to Mammalian Translation. (Fields et al. 2015) |
| Epidermis: Sendoel17 |
| Translation from unconventional 5' start sites drives tumour initiation. (Sendoel et al. 2017) |
| ESCs: Simsek17 |
| The Mammalian Ribo-interactome Reveals Ribosome Functional Diversity and Heterogeneity. (Simsek et al. 2017) |
| Kidney: CasteloSzekely17 |
| Translational contributions to tissue specificity in rhythmic and constitutive gene expression. (CasteloSzekely et al. 2017) |
| Liver: AlvarezDominguez17 |
| Widespread and dynamic translational control of red blood cell development. (AlvarezDominguez et al. 2017) |
| Liver: FradejasVillar16 |
| The RNA-binding protein Secisbp2 differentially modulates UGA codon reassignment and RNA decay. (Fradejas-Villar et al. 2016) |
| liver: Howard 2013 |
| Ribosome profiles of elongating ribosomes from liver tissue from mice fed with diets supplemented with different levels of selenium (Howard et al. 2013) |
| Liver: Janich 2015 |
| Ribosome profiling reveals the rhythmic liver translatome and circadian clock regulation by upstream open reading frames. (Janich et al. 2015) |
| Liver:Atger 2015 |
| Circadian and feeding rhythms differentially affect rhythmic mRNA transcription and translation in mouse liver. (Atger et al. 2015) |
| Liver:Gerashchenko 2016 |
| Ribonuclease selection for ribosome profiling. (Gerashchenko et al. 2016) |
| MEF & Liver: Gao 2014 |
| Ribosome profiling of elongating ribosomes using cycoheximide from MEF and mouse liver cells (Gao et al. 2014) |
| MEF: Lee 2012 |
| Ribosome profiles of elongating ribosomes from Mouse Embryonic Fibroblasts (MEF) cells treated with cycloheximide (Lee et al. 2012) |
| MEF: Reid 2016 |
| Complementary Roles of GADD34- and CReP-Containing Eukaryotic Initiation Factor 2α Phosphatases during the Unfolded Protein Response. (Reid et al. 2016) |
| MEF: Thoreen 2012 |
| Ribosome profiles of elongating ribosomes from wild-type or 4EBP1 knockout MEFs treated with vehicle or Torin 1 for 2 hours (Thoreen et al. 2012) |
| Melanoma: Rapino18 |
| Codon-specific translation reprogramming promotes resistance to targeted therapy. (Rapino et al. 2018) |
| MES & EB: Ingolia 2011 |
| Ribosome profiles of elongating ribosomes from mouse embryonic stem (MES) cells and embryoid bodies (EB) (Ingolia et al. 2011) |
| MES: Hurt 2013 |
| Global analyses of UPF1 binding and function reveal expanded scope of nonsense-mediated mRNA decay. (Hurt et al. 2013) |
| MES: Ingolia 2014 |
| Ribosome profiling of elongating ribosomes pretreated with cycloheximide or emetine from mouse ES cells (Ingolia et al. 2014) |
| MES: Laguesse 2015 |
| A Dynamic Unfolded Protein Response Contributes to the Control of Cortical Neurogenesis. (Laguesse et al. 2015) |
| MES: Neri17 |
| Intragenic DNA methylation prevents spurious transcription initiation. (Neri et al. 2017) |
| MES: Reid 2014 |
| The unfolded protein response triggers selective mRNA release from the endoplasmic reticulum. (Reid et al. 2014) |
| MES: You 2015 |
| Role of the small subunit processome in the maintenance of pluripotent stem cells. (You et al. 2015) |
| mESC: Atlasi20 |
| The translational landscape of ground state pluripotency. (Atlasi et al. 2020) |
| mESC: Freimer18 |
| Decoupling the impact of microRNAs on translational repression versus RNA degradation in embryonic stem cells. (Freimer et al. 2018) |
| myoblasts & myotubes: deKlerk 2015 |
| Ribosome profiling of elongating ribosomes from Mouse C2C12 myoblasts and differentiated myotubes (E. de Klerk et al., 2015) |
| neutrophils: Guo 2010 |
| Ribosome profiles of elongating ribosomes from miR-223 knock-out mouse-neutrophil cells (Guo et al. 2010) |
| NSUN2: Blanco 2016 |
| Stem cell function and stress response are controlled by protein synthesis. (Blanco et al. 2016) |
| Testes :Castaneda 2014 |
| Reduced pachytene piRNAs and translation underlie spermiogenic arrest in Maelstrom mutant mice. (Castaneda et al. 2014) |
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| Global aggregate |
| Ribo-seq unique mappers from all studies |
| 3T3:Eichhorn 2014 |
| mRNA destabilization is the dominant effect of mammalian microRNAs by the time substantial repression ensues. (Eichhorn et al. 2014) |
| Adipose: Reid17 |
| Integrative analyses of translatome and transcriptome reveal important translational controls in brown and white adipose regulated by microRNAs. (Reid et al. 2017) |
| Brain:Cho 2015 |
| Multiple repressive mechanisms in the hippocampus during memory formation. (Cho et al. 2015) |
| Brain:Hornstein 2016 |
| Ligation-free ribosome profiling of cell type-specific translation in the brain. (Hornstein et al. 2016) |
| Dendritic: Fields 2015 |
| A Regression-Based Analysis of Ribosome-Profiling Data Reveals a Conserved Complexity to Mammalian Translation. (Fields et al. 2015) |
| Epidermis: Sendoel17 |
| Translation from unconventional 5' start sites drives tumour initiation. (Sendoel et al. 2017) |
| ESCs: Simsek17 |
| The Mammalian Ribo-interactome Reveals Ribosome Functional Diversity and Heterogeneity. (Simsek et al. 2017) |
| Kidney: CasteloSzekely17 |
| Translational contributions to tissue specificity in rhythmic and constitutive gene expression. (CasteloSzekely et al. 2017) |
| Liver: AlvarezDominguez17 |
| Widespread and dynamic translational control of red blood cell development. (AlvarezDominguez et al. 2017) |
| Liver: FradejasVillar16 |
| The RNA-binding protein Secisbp2 differentially modulates UGA codon reassignment and RNA decay. (Fradejas-Villar et al. 2016) |
| liver: Howard 2013 |
| This track shows the coverage of ribosome footprints on the Mus musculus genome based on all ribosome profiling experiments on liver tissue from mice fed with diets supplemented with different levels of selenium (Howard et al. 2013) |
| Liver: Janich 2015 |
| Ribosome profiling reveals the rhythmic liver translatome and circadian clock regulation by upstream open reading frames. (Janich et al. 2015) |
| Liver:Atger 2015 |
| Circadian and feeding rhythms differentially affect rhythmic mRNA transcription and translation in mouse liver. (Atger et al. 2015) |
| Liver:Gerashchenko 2016 |
| Ribonuclease selection for ribosome profiling. (Gerashchenko et al. 2016) |
| MEF & Liver: Gao 2014 |
| Ribo-seq unique mappers from from MEF cells and liver tissue which underwent starvation and the corresponding controls (Gao et al. 2014) |
| MEF: Lee 2012 |
| Ribo-seq unique mappers from Mouse Embryonic Fibroblasts (MEF) cells treated with cycloheximide and lactimidomycin (Lee et al. 2012) |
| MEF: Reid 2016 |
| Complementary Roles of GADD34- and CReP-Containing Eukaryotic Initiation Factor 2α Phosphatases during the Unfolded Protein Response. (Reid et al. 2016) |
| MEF: Thoreen 2012 |
| Ribo-seq unique mappers from wild-type or 4EBP1 knockout MEFs treated with vehicle or Torin 1 for 2 hours (Thoreen et al. 2012) |
| Melanoma: Rapino18 |
| Codon-specific translation reprogramming promotes resistance to targeted therapy. (Rapino et al. 2018) |
| MES & EB: Ingolia 2011 |
| Ribo-seq unique mappers from mouse embryonic stem (MES) cells and embryoid bodies (EB) (Ingolia et al. 2011) |
| MES: Hurt 2013 |
| Global analyses of UPF1 binding and function reveal expanded scope of nonsense-mediated mRNA decay. (Hurt et al. 2013) |
| MES: Ingolia 2014 |
| Ribo-seq unique mappers from mouse embryonic stem (MES) cells (Ingolia et al. 2014) |
| MES: Laguesse 2015 |
| A Dynamic Unfolded Protein Response Contributes to the Control of Cortical Neurogenesis. (Laguesse et al. 2015) |
| MES: Neri17 |
| Intragenic DNA methylation prevents spurious transcription initiation. (Neri et al. 2017) |
| MES: Reid 2014 |
| The unfolded protein response triggers selective mRNA release from the endoplasmic reticulum. (Reid et al. 2014) |
| MES: You 2015 |
| Role of the small subunit processome in the maintenance of pluripotent stem cells. (You et al. 2015) |
| mESC: Atlasi20 |
| The translational landscape of ground state pluripotency. (Atlasi et al. 2020) |
| mESC: Freimer18 |
| Decoupling the impact of microRNAs on translational repression versus RNA degradation in embryonic stem cells. (Freimer et al. 2018) |
| neutrophils: Guo 2010 |
| Ribosome coverage plots of elongating ribosomes from miR-223 knock-out mouse-neutrophil cells (Guo et al. 2010) |
| NSUN2: Blanco 2016 |
| Stem cell function and stress response are controlled by protein synthesis. (Blanco et al. 2016) |
| Testes :Castaneda 2014 |
| Reduced pachytene piRNAs and translation underlie spermiogenic arrest in Maelstrom mutant mice. (Castaneda et al. 2014) |
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| Global aggregate |
| mRNA coverage data from all studies |
| 3T3:Eichhorn 2014 |
| mRNA destabilization is the dominant effect of mammalian microRNAs by the time substantial repression ensues. (Eichhorn et al. 2014) |
| Adipose: Reid17 |
| Integrative analyses of translatome and transcriptome reveal important translational controls in brown and white adipose regulated by microRNAs. (Reid et al. 2017) |
| brain: Gonzalez 2014 |
| mRNA-seq unique mappers from skeletal muscle tissue (Gonzalez et al. 2014) |
| Brain:Cho 2015 |
| Multiple repressive mechanisms in the hippocampus during memory formation. (Cho et al. 2015) |
| Brain:Hornstein 2016 |
| Ligation-free ribosome profiling of cell type-specific translation in the brain. (Hornstein et al. 2016) |
| Epidermis: Sendoel17 |
| Translation from unconventional 5' start sites drives tumour initiation. (Sendoel et al. 2017) |
| ESCs: Simsek17 |
| The Mammalian Ribo-interactome Reveals Ribosome Functional Diversity and Heterogeneity. (Simsek et al. 2017) |
| Kidney: CasteloSzekely17 |
| Translational contributions to tissue specificity in rhythmic and constitutive gene expression. (CasteloSzekely et al. 2017) |
| Liver :Janich 2015 |
| Ribosome profiling reveals the rhythmic liver translatome and circadian clock regulation by upstream open reading frames. (Janich et al. 2015) |
| Liver: AlvarezDominguez17 |
| Widespread and dynamic translational control of red blood cell development. (AlvarezDominguez et al. 2017) |
| Liver: FradejasVillar16 |
| The RNA-binding protein Secisbp2 differentially modulates UGA codon reassignment and RNA decay. (Fradejas-Villar et al. 2016) |
| liver: Howard 2013 |
| mRNA coverage plots from liver tissue from mice fed with diets supplemented with different levels of selenium (Howard et al. 2013) |
| Liver:Atger 2015 |
| Circadian and feeding rhythms differentially affect rhythmic mRNA transcription and translation in mouse liver. (Atger et al. 2015) |
| MEF & Liver: Gao 2014 |
| mRNA coverage plots from MEF and liver tissue (Gao et al. 2014) |
| MEF: Reid 2016 |
| Complementary Roles of GADD34- and CReP-Containing Eukaryotic Initiation Factor 2α Phosphatases during the Unfolded Protein Response. (Reid et al. 2016) |
| MEF: Thoreen 2012 |
| mRNA coverage plots wild-type or 4EBP1 knockout MEFs treated with vehicle or Torin 1 for 2 hours (Thoreen et al. 2012) |
| Melanoma: Rapino18 |
| Codon-specific translation reprogramming promotes resistance to targeted therapy. (Rapino et al. 2018) |
| MES & EB: Ingolia 2011 |
| mRNA-seq unique mappers from mouse embryonic stem (MES) cells and embryoid bodies (EB) (Ingolia et al. 2011) |
| MES: Hurt 2013 |
| Global analyses of UPF1 binding and function reveal expanded scope of nonsense-mediated mRNA decay. (Hurt et al. 2013) |
| MES: Laguesse 2015 |
| A Dynamic Unfolded Protein Response Contributes to the Control of Cortical Neurogenesis. (Laguesse et al. 2015) |
| MES: Reid 2014 |
| The unfolded protein response triggers selective mRNA release from the endoplasmic reticulum. (Reid et al. 2014) |
| MES: You 2015 |
| Role of the small subunit processome in the maintenance of pluripotent stem cells. (You et al. 2015) |
| mesc: Atlasi20 |
| The translational landscape of ground state pluripotency. (Atlasi et al. 2020) |
| mESC: Freimer18 |
| Decoupling the impact of microRNAs on translational repression versus RNA degradation in embryonic stem cells. (Freimer et al. 2018) |
| neutrophils: Guo 2010 |
| mRNA coverage plots from miR-223 knock-out mouse-neutrophil cells (Guo et al. 2010) |
| NSUN2: Blanco 2016 |
| Stem cell function and stress response are controlled by protein synthesis. (Blanco et al. 2016) |
| Testes :Castaneda 2014 |
| Reduced pachytene piRNAs and translation underlie spermiogenic arrest in Maelstrom mutant mice. (Castaneda et al. 2014) |
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| Short Match |
| Perfect Matches to Short Sequence () |
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| NCBI RefSeq |
| RefSeq gene predictions from NCBI |
| All GENCODE VM18 |
| All GENCODE annotations from VM18 (Ensembl 93) |
| RefSeq Genes |
| RefSeq Genes |
Ensembl Genes |
| Ensembl Genes |
| Spliced ESTs |
| Mouse ESTs That Have Been Spliced |
| Mouse ESTs |
| Mouse ESTs Including Unspliced |
| RepeatMasker |
| Repeating Elements by RepeatMasker |
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