Control track and group visibility more selectively below.
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| Base Position |
| Chromosome position in bases. (Clicks here zoom in 3x) |
| HEK: Wagner20 |
| Selective Translation Complex Profiling Reveals Staged Initiation and Co-translational Assembly of Initiation Factor Complexes (Wagner et al. 2020) |
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| Global Aggregate |
| initiating Ribosome Profiles from all studies. |
| BJ/MCF10A:Ji 2015 |
| Many lncRNAs, 5’UTRs, and pseudogenes are translated and some are likely to express functional proteins
(Ji et al. 2015) |
| HCT116: Fijalkowska17 |
| eIF1 modulates the recognition of suboptimal translation initiation sites and steers gene expression via uORFs. (Fijalkowska et al. 2017) |
| HCT116:Crappe 2015 |
| PROTEOFORMER: deep proteome coverage through ribosome profiling and MS integration. (Crappe et al. 2015) |
| HEK293: Gao14 |
| Quantitative profiling of initiating ribosomes in vivo (Xiangwei et al. 2014) |
| HEK: Zhang17 |
| Genome-wide identification and differential analysis of translational initiation. (Zhang et al. 2017) |
| iPSC: Chen20 |
| Pervasive functional translation of noncanonical human open reading frames (Chen et al. 2020) |
| Jurkat: Gawron 2016 |
| Positional proteomics reveals differences in N-terminal proteoform stability. (Gawron et al. 2016) |
| LCL :Raj 2016 |
| Thousands of novel translated open reading frames in humans inferred by ribosome footprint profiling. (Raj et al. 2016) |
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| Global Aggregate |
| Ribosome Profiles from all studies. |
| BJ/MCF10A:Ji 2015 |
| Many lncRNAs, 5’UTRs, and pseudogenes are translated and some are likely to express functional proteins
(Ji et al. 2015) |
| Blood: Mills16 |
| Dynamic Regulation of a Ribosome Rescue Pathway in Erythroid Cells and Platelets. (Mills et al. 2016) |
| Erythroid: Khajuria18 |
| Ribosome Levels Selectively Regulate Translation and Lineage Commitment in Human Hematopoiesis. (Khajuria et al. 2018) |
| Fibroblast: Tirosh 2015 |
| The transcription and translation landscapes during human cytomegalovirus infection reveal novel host-pathogen interactions (Tirosh et al. 2015) |
| Fibroblast:Xu 2016 |
| Improved transcription and translation with L-leucine stimulation of mTORC1 in Roberts syndrome. (Xu et al. 2016) |
| Flp-In T-REx-293: Malecki17 |
| The novel lysine specific methyltransferase METTL21B affects mRNA translation through inducible and dynamic methylation of Lys-165 in human eukaryotic elongation factor 1 alpha (eEF1A) (Malecki et al. 2017) |
| HAP1: Jakobsson17 |
| Methylation of human eukaryotic elongation factor alpha (eEF1A) by a member of a novel protein lysine methyltransferase family modulates mRNA trans... (Jakobsson et al. 2017) |
| HCT116: Fijalkowska17 |
| eIF1 modulates the recognition of suboptimal translation initiation sites and steers gene expression via uORFs. (Fijalkowska et al. 2017) |
| HCT116:Crappe 2015 |
| PROTEOFORMER: deep proteome coverage through ribosome profiling and MS integration. (Crappe et al. 2015) |
| HEK293: Clamer18 |
| Active Ribosome Profiling with RiboLace. (Clamer et al. 2018) |
| HEK293: Gao14 |
| Quantitative profiling of initiating ribosomes in vivo (Xiangwei et al. 2014) |
| HEK293: Iwasaki19 |
| The Translation Inhibitor Rocaglamide Targets a Bimolecular Cavity between eIF4A and Polypurine RNA. (Iwasaki et al. 2019) |
| HEK: Andreev15 |
| Translation of 5' leaders is pervasive in genes resistant to eIF2 repression. (Andreev et al. 2015) |
| HEK: Calviello 2016 |
| Detecting actively translated open reading frames in ribosome profiling data. (Calviello et al. 2016) |
| HEK: Ingolia12 |
| The ribosome profiling strategy for monitoring translation in vivo by deep sequencing of ribosome-protected mRNA fragments. (Ingolia et al. 2012) |
| HEK: Iwasaki 2016 |
| Rocaglates convert DEAD-box protein eIF4A into a sequence-selective translational repressor. (Iwasaki et al. 2016) |
| HEK: Oh16 |
| Medulloblastoma-associated DDX3 variant selectively alters the translational response to stress. (Oh et al. 2016) |
| HEK: Park17 |
| mTORC1 Balances Cellular Amino Acid Supply with Demand for Protein Synthesis through Post-transcriptional Control of ATF4. (Park et al. 2017) |
| HEK: Sidrauski 2015 |
| The Small Molecule ISRIB Reverses the Effects of eIF2α Phosphorylation on Translation and Stress Granule Assembly (Sidrauski et al. 2015) |
| HEK: Wagner20 |
| Selective Translation Complex Profiling Reveals Staged Initiation and Co-translational Assembly of Initiation Factor Complexes (Wagner et al. 2020) |
| HEK: Zhang17 |
| Genome-wide identification and differential analysis of translational initiation. (Zhang et al. 2017) |
| HeLa :Park 2016 |
| Regulation of Poly(A) Tail and Translation during the Somatic Cell Cycle. (Park et al. 2016) |
| HeLa: Arango18 |
| Acetylation of Cytidine in mRNA Promotes Translation Efficiency. (Arango et al. 2018) |
| HeLa: Niu 2013 |
| N6-methyl-adenosine (m6A) in RNA: an old modification with a novel epigenetic function. (Niu et al. 2013) |
| HeLa: Shi17 |
| YTHDF3 facilitates translation and decay of N6-methyladenosine-modified RNA. (Shi et al. 2017) |
| HeLa: Yoon 2014 |
| PAR-CLIP analysis uncovers AUF1 impact on target RNA fate and genome integrity. (Yoon et al. 2014) |
| HeLa:Zur 2016 |
| Complementary Post Transcriptional Regulatory Information is Detected by PUNCH-P and Ribosome Profiling. (Zur et al. 2016) |
| hESC: Werner 2015 |
| Cell fate determination by ubiquitin-dependent regulation of translation (Werner et al. 2015) |
| hTERT-RPE-1: Haas20 |
| PDCD4 controls the G1/S-phase transition in a telomerase-immortalized epithelial cell line and affects the expression level and translation of mult... (Haas et al. 2020) |
| iPSC: Chen20 |
| Pervasive functional translation of noncanonical human open reading frames (Chen et al. 2020) |
| Jurkat: Gawron 2016 |
| Positional proteomics reveals differences in N-terminal proteoform stability. (Gawron et al. 2016) |
| KOPT-K1: Wolfe 2014 |
| RNA G-quadruplexes cause eIF4A-dependent oncogene translation in cancer. (Wolfe et al. 2014) |
| LCL: Battle 2015 |
| Impact of Regulatory Variation from RNA to Protein (Battle et al. 2015) |
| LCL: Cenik 2015 |
| Ribosome Profiling and RNA sequencing experiments from human lymphoblastoid cells (Cenik et al. 2015) |
| Lymphocytes: Reid 2015 |
| Simple and inexpensive ribosome profiling analysis of mRNA translation. (Reid et al. 2015) |
| MCF10A-ER-Src: Gameiro18 |
| Nutrient Deprivation Elicits a Transcriptional and Translational Inflammatory Response Coupled to Decreased Protein Synthesis. (Gameiro et al. 2018) |
| MCF7: Lauria18 |
| riboWaltz: Optimization of ribosome P-site positioning in ribosome profiling data. (Lauria et al. 2018) |
| MCF7: LoayzaPuch16 |
| Tumour-specific proline vulnerability uncovered by differential ribosome codon reading. (LoayzaPuch et al. 2016) |
| MDA-MB-231: Rubio 2014 |
| Transcriptome-wide characterization of the eIF4A signature highlights plasticity in translation regulation. (Rubio et al. 2014) |
| Monocytes :Su 2015 |
| Interferon-γ regulates cellular metabolism and mRNA translation to potentiate macrophage activation. (Su et al. 2015) |
| Muscle:Wein 2014 |
| Translation from a DMD exon 5 IRES results in a functional dystrophin isoform that attenuates dystrophinopathy in humans and mice. (Wein et al. 2014) |
| Myeloma:Wiita 2013 |
| Global cellular response to chemotherapy-induced apoptosis. (Wiita et al. 2013) |
| RPE1: Tanenbaum 2015 |
| Regulation of mRNA translation during mitosis (Tanenbaum et al. 2015) |
| U20S :Guo 2014 |
| Expanded identification and characterization of mammalian circular RNAs. (Guo et al. 2014) |
| U2OS: Elkon 2015 |
| Myc coordinates transcription and translation to enhance transformation and suppress invasiveness. (Elkon et al. 2015) |
| U2OS: Jang 2015 |
| Ribosome profiling reveals an important role for translational control in circadian gene expression (Jang et al. 2015) |
|
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|---|
| Global Aggregate |
| Ribo-seq coverage data from all studies. |
| BJ/MCF10A:Ji 2015 |
| Many lncRNAs, 5’UTRs, and pseudogenes are translated and some are likely to express functional proteins
(Ji et al. 2015) |
| Blood: Mills16 |
| Dynamic Regulation of a Ribosome Rescue Pathway in Erythroid Cells and Platelets. (Mills et al. 2016) |
| Erythroid: Khajuria18 |
| Ribosome Levels Selectively Regulate Translation and Lineage Commitment in Human Hematopoiesis. (Khajuria et al. 2018) |
| Fibroblast: Tirosh 2015 |
| The transcription and translation landscapes during human cytomegalovirus infection reveal novel host-pathogen interactions (Tirosh et al. 2015) |
| Fibroblast:Xu 2016 |
| Improved transcription and translation with L-leucine stimulation of mTORC1 in Roberts syndrome. (Xu et al. 2016) |
| Flp-In T-REx-293: Malecki17 |
| The novel lysine specific methyltransferase METTL21B affects mRNA translation through inducible and dynamic methylation of Lys-165 in human eukaryotic elongation factor 1 alpha (eEF1A) (Malecki et al. 2017) |
| HAP1: Jakobsson17 |
| Methylation of human eukaryotic elongation factor alpha (eEF1A) by a member of a novel protein lysine methyltransferase family modulates mRNA trans... (Jakobsson et al. 2017) |
| HCT116: Fijalkowska17 |
| eIF1 modulates the recognition of suboptimal translation initiation sites and steers gene expression via uORFs. (Fijalkowska et al. 2017) |
| HCT116:Crappe 2015 |
| PROTEOFORMER: deep proteome coverage through ribosome profiling and MS integration. (Crappe et al. 2015) |
| HEK293: Clamer18 |
| Active Ribosome Profiling with RiboLace. (Clamer et al. 2018) |
| HEK293: Gao14 |
| Quantitative profiling of initiating ribosomes in vivo (Xiangwei et al. 2014) |
| HEK293: Iwasaki19 |
| The Translation Inhibitor Rocaglamide Targets a Bimolecular Cavity between eIF4A and Polypurine RNA. (Iwasaki et al. 2019) |
| HEK: Andreev15 |
| Translation of 5' leaders is pervasive in genes resistant to eIF2 repression. (Andreev et al. 2015) |
| HEK: Calviello 2016 |
| Detecting actively translated open reading frames in ribosome profiling data. (Calviello et al. 2016) |
| HEK: Ingolia12 |
| The ribosome profiling strategy for monitoring translation in vivo by deep sequencing of ribosome-protected mRNA fragments. (Ingolia et al. 2012) |
| HEK: Iwasaki 2016 |
| Rocaglates convert DEAD-box protein eIF4A into a sequence-selective translational repressor. (Iwasaki et al. 2016) |
| HEK: Oh16 |
| Medulloblastoma-associated DDX3 variant selectively alters the translational response to stress. (Oh et al. 2016) |
| HEK: Park17 |
| mTORC1 Balances Cellular Amino Acid Supply with Demand for Protein Synthesis through Post-transcriptional Control of ATF4. (Park et al. 2017) |
| HEK: Sidrauski 2015 |
| The Small Molecule ISRIB Reverses the Effects of eIF2α Phosphorylation on Translation and Stress Granule Assembly (Sidrauski et al. 2015) |
| HEK: Wagner20 |
| Selective Translation Complex Profiling Reveals Staged Initiation and Co-translational Assembly of Initiation Factor Complexes (Wagner et al. 2020) |
| HEK: Zhang17 |
| Genome-wide identification and differential analysis of translational initiation. (Zhang et al. 2017) |
| HeLa :Park 2016 |
| Regulation of Poly(A) Tail and Translation during the Somatic Cell Cycle. (Park et al. 2016) |
| HeLa: Arango18 |
| Acetylation of Cytidine in mRNA Promotes Translation Efficiency. (Arango et al. 2018) |
| HeLa: Niu 2013 |
| N6-methyl-adenosine (m6A) in RNA: an old modification with a novel epigenetic function. (Niu et al. 2013) |
| HeLa: Shi17 |
| YTHDF3 facilitates translation and decay of N6-methyladenosine-modified RNA. (Shi et al. 2017) |
| HeLa: Yoon 2014 |
| PAR-CLIP analysis uncovers AUF1 impact on target RNA fate and genome integrity. (Yoon et al. 2014) |
| HeLa:Zur 2016 |
| Complementary Post Transcriptional Regulatory Information is Detected by PUNCH-P and Ribosome Profiling. (Zur et al. 2016) |
| hESC: Werner 2015 |
| Cell fate determination by ubiquitin-dependent regulation of translation (Werner et al. 2015) |
| hTERT-RPE-1: Haas20 |
| PDCD4 controls the G1/S-phase transition in a telomerase-immortalized epithelial cell line and affects the expression level and translation of mult... (Haas et al. 2020) |
| iPSC: Chen20 |
| Pervasive functional translation of noncanonical human open reading frames (Chen et al. 2020) |
| Jurkat: Gawron 2016 |
| Positional proteomics reveals differences in N-terminal proteoform stability. (Gawron et al. 2016) |
| KOPT-K1: Wolfe 2014 |
| RNA G-quadruplexes cause eIF4A-dependent oncogene translation in cancer. (Wolfe et al. 2014) |
| LCL :Raj 2016 |
| Thousands of novel translated open reading frames in humans inferred by ribosome footprint profiling. (Raj et al. 2016) |
| LCL: Battle 2015 |
| Impact of Regulatory Variation from RNA to Protein (Battle et al. 2015) |
| LCL: Cenik 2015 |
| Ribosome Profiling experiments from human lymphoblastoid cells (Cenik et al. 2015) |
| Lymphocytes: Reid 2015 |
| Simple and inexpensive ribosome profiling analysis of mRNA translation. (Reid et al. 2015) |
| MCF10A-ER-Src: Gameiro18 |
| Nutrient Deprivation Elicits a Transcriptional and Translational Inflammatory Response Coupled to Decreased Protein Synthesis. (Gameiro et al. 2018) |
| MCF7: Lauria18 |
| riboWaltz: Optimization of ribosome P-site positioning in ribosome profiling data. (Lauria et al. 2018) |
| MCF7: LoayzaPuch16 |
| Tumour-specific proline vulnerability uncovered by differential ribosome codon reading. (LoayzaPuch et al. 2016) |
| MDA-MB-231: Rubio 2014 |
| Transcriptome-wide characterization of the eIF4A signature highlights plasticity in translation regulation. (Rubio et al. 2014) |
| Monocytes :Su 2015 |
| Interferon-γ regulates cellular metabolism and mRNA translation to potentiate macrophage activation. (Su et al. 2015) |
| Muscle:Wein 2014 |
| Translation from a DMD exon 5 IRES results in a functional dystrophin isoform that attenuates dystrophinopathy in humans and mice. (Wein et al. 2014) |
| Myeloma:Wiita 2013 |
| Global cellular response to chemotherapy-induced apoptosis. (Wiita et al. 2013) |
| RPE1: Tanenbaum 2015 |
| Regulation of mRNA translation during mitosis (Tanenbaum et al. 2015) |
| U20S :Guo 2014 |
| Expanded identification and characterization of mammalian circular RNAs. (Guo et al. 2014) |
| U2OS: Elkon 2015 |
| Myc coordinates transcription and translation to enhance transformation and suppress invasiveness. (Elkon et al. 2015) |
| U2OS: Jang 2015 |
| Ribosome profiling reveals an important role for translational control in circadian gene expression (Jang et al. 2015) |
|
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|---|
| Global Aggregate |
| mRNA-seq coverage data from all studies. |
| BJ/MCF10A:Ji 2015 |
| Many lncRNAs, 5’UTRs, and pseudogenes are translated and some are likely to express functional proteins
(Ji et al. 2015) |
| Erythroid: Khajuria18 |
| Ribosome Levels Selectively Regulate Translation and Lineage Commitment in Human Hematopoiesis. (Khajuria et al. 2018) |
| Fibroblast: Tirosh 2015 |
| The transcription and translation landscapes during human cytomegalovirus infection reveal novel host-pathogen interactions (Tirosh et al. 2015) |
| Fibroblast:Xu 2016 |
| Improved transcription and translation with L-leucine stimulation of mTORC1 in Roberts syndrome. (Xu et al. 2016) |
| HAP1: Jakobsson17 |
| Methylation of human eukaryotic elongation factor alpha (eEF1A) by a member of a novel protein lysine methyltransferase family modulates mRNA trans... (Jakobsson et al. 2017) |
| HCT116: Fijalkowska17 |
| eIF1 modulates the recognition of suboptimal translation initiation sites and steers gene expression via uORFs. (Fijalkowska et al. 2017) |
| HEK293: Gao14 |
| Quantitative profiling of initiating ribosomes in vivo (Xiangwei et al. 2014) |
| HEK: Andreev15 |
| Translation of 5' leaders is pervasive in genes resistant to eIF2 repression. (Andreev et al. 2015) |
| HEK: Iwasaki 2016 |
| Rocaglates convert DEAD-box protein eIF4A into a sequence-selective translational repressor. (Iwasaki et al. 2016) |
| HEK: Oh16 |
| Medulloblastoma-associated DDX3 variant selectively alters the translational response to stress. (Oh et al. 2016) |
| HEK: Park17 |
| mTORC1 Balances Cellular Amino Acid Supply with Demand for Protein Synthesis through Post-transcriptional Control of ATF4. (Park et al. 2017) |
| HEK: Sidrauski 2015 |
| The Small Molecule ISRIB Reverses the Effects of eIF2α Phosphorylation on Translation and Stress Granule Assembly (Sidrauski et al. 2015) |
| HEK: Wagner20 |
| Selective Translation Complex Profiling Reveals Staged Initiation and Co-translational Assembly of Initiation Factor Complexes (Wagner et al. 2020) |
| HeLa :Park 2016 |
| Regulation of Poly(A) Tail and Translation during the Somatic Cell Cycle. (Park et al. 2016) |
| HeLa: Arango18 |
| Acetylation of Cytidine in mRNA Promotes Translation Efficiency. (Arango et al. 2018) |
| HeLa: Niu 2013 |
| N6-methyl-adenosine (m6A) in RNA: an old modification with a novel epigenetic function. (Niu et al. 2013) |
| HeLa: Shi17 |
| YTHDF3 facilitates translation and decay of N6-methyladenosine-modified RNA. (Shi et al. 2017) |
| HeLa:Zur 2016 |
| Complementary Post Transcriptional Regulatory Information is Detected by PUNCH-P and Ribosome Profiling. (Zur et al. 2016) |
| hESC: Werner 2015 |
| Cell fate determination by ubiquitin-dependent regulation of translation (Werner et al. 2015) |
| hTERT-RPE-1: Haas20 |
| PDCD4 controls the G1/S-phase transition in a telomerase-immortalized epithelial cell line and affects the expression level and translation of mult... (Haas et al. 2020) |
| iPSC: Chen20 |
| Pervasive functional translation of noncanonical human open reading frames (Chen et al. 2020) |
| KOPT-K1: Wolfe 2014 |
| RNA G-quadruplexes cause eIF4A-dependent oncogene translation in cancer. (Wolfe et al. 2014) |
| LCL: Battle 2015 |
| Impact of regulatory variation from RNA to protein (Battle et al. 2015) |
| LCL: Cenik 2015 |
| RNA sequencing experiments from human lymphoblastoid cells (Cenik et al. 2015) |
| MCF10A-ER-Src: Gameiro18 |
| Nutrient Deprivation Elicits a Transcriptional and Translational Inflammatory Response Coupled to Decreased Protein Synthesis. (Gameiro et al. 2018) |
| MCF7: Lauria18 |
| riboWaltz: Optimization of ribosome P-site positioning in ribosome profiling data. (Lauria et al. 2018) |
| MDA-MB-231: Rubio 2014 |
| Transcriptome-wide characterization of the eIF4A signature highlights plasticity in translation regulation. (Rubio et al. 2014) |
| Monocytes :Su 2015 |
| Interferon-γ regulates cellular metabolism and mRNA translation to potentiate macrophage activation. (Su et al. 2015) |
| Muscle:Wein 2014 |
| Translation from a DMD exon 5 IRES results in a functional dystrophin isoform that attenuates dystrophinopathy in humans and mice. (Wein et al. 2014) |
| Myeloma:Wiita 2013 |
| Global cellular response to chemotherapy-induced apoptosis. (Wiita et al. 2013) |
| RPE1: Tanenbaum 2015 |
| Regulation of mRNA translation during mitosis (Tanenbaum et al. 2015) |
| U20S :Guo 2014 |
| Expanded identification and characterization of mammalian circular RNAs. (Guo et al. 2014) |
| U2OS: Elkon 2015 |
| Myc coordinates transcription and translation to enhance transformation and suppress invasiveness. (Elkon et al. 2015) |
| U2OS: Jang 2015 |
| Ribosome profiling reveals an important role for translational control in circadian gene expression (Jang et al. 2015) |
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| Short Match |
| Perfect Matches to Short Sequence () |
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| Cons Primates |
| Primates Multiz Alignment & Conservation (20 Species) |
| Conservation |
| Multiz Alignment & Conservation (7 Species) |
| phyloP 100way |
| 100 vertebrates Basewise Conservation by PhyloP (phyloP100way) |
| NCBI RefSeq |
| RefSeq gene predictions from NCBI |
| RefSeq Genes |
| RefSeq Genes |
| CCDS |
| Consensus CDS |
| GENCODE (Ensembl) |
| GENCODE Gene Annotations (Ensembl) |
| GENCODE V22 (Ensembl 79) |
| Gene Annotations from GENCODE Version 22 (Ensembl 79) |
| GENCODE V20 (Ensembl 76) |
| Gene Annotations from GENCODE Version 20 (Ensembl 76) |
| All GENCODE V28 |
| All GENCODE annotations from V28 (Ensembl 92) |
| All GENCODE V25 |
| All GENCODE transcripts including comprehensive set V25 |
| All GENCODE V41 |
| All GENCODE annotations from V41 (Ensembl 107) |
| All GENCODE V42 |
| All GENCODE annotations from V42 (Ensembl 108) |
| new
All GENCODE V43 |
| All GENCODE annotations from V43 (Ensembl 109) |
| new
All GENCODE V44 |
| All GENCODE annotations from V44 (Ensembl 110) |
| MANE v1.0 |
| NCBI RefSeq and Ensembl transcripts from the MANE Project (v1.0) |
| Mappability |
| Hoffman Lab Umap and Bismap Mappability |
| Bismap |
| Single-read and multi-read mappability after bisulfite conversion |
| Umap |
| Single-read and multi-read mappability by Umap |
| Ribo-Seq ORFs |
| Gencode Ribo-Seq ORFs |
|
|