Genomics
1 Transcripts
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| Transcript:T05C7.5.1 | T05C7.5.1 |
800
 |
IV: 57449-58918 |
Other
1 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:T05C7.5 | T05C7.5 |
156
|
IV: 57981-58082 |
25 Allele
| Public Name |
|---|
| WBVar02124409 |
| gk963219 |
| gk962848 |
| gk191244 |
| gk191245 |
| h4961 |
| WBVar01509804 |
| WBVar01984212 |
| WBVar01846824 |
| WBVar01964228 |
| gk706488 |
| gk381782 |
| gk815386 |
| gk349444 |
| gk505469 |
| gk438879 |
| gk474203 |
| gk653703 |
| gk628916 |
| WBVar01579554 |
| gk533391 |
| WBVar02049834 |
| gk665003 |
| gk852490 |
| gk357317 |
1 Downstream Intergenic Region
| WormBase ID | Name | Sequence Name | Length (nt) | Chromosome Location | Organism |
|---|---|---|---|---|---|
| intergenic_region_chrIV_53640..57448 | 3809 | IV: 53640-57448 | Caenorhabditis elegans |
10 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| Transcripts that showed significantly increased expression after animals were treated with 50uM Rifampicin and 250uM Allantoin from day 1 to day 3 adult hermaphradite. | DESeq2(v1.14.1), fold change > 2, p-value < 0.05 | WBPaper00055354:Rifampicin-Allantoin_upregulated | |
| Transcripts that showed significantly increased expression in whole animal day 1 N2 adults comparing to in whole animal day 8 N2 adults. | DESeq2, FDR < 0.05, fold change > 2. | WBPaper00066978:Day1Adult_vs_Day8Adult_upregulated_neuron | |
| Transcripts that showed significantly increased expression in daf-2(e1370) neurons comparing to in N2 neurons at day 8adult stage. | DESeq2, FDR < 0.05, fold change > 2. | WBPaper00066978:daf-2(e1370)_upregulated_neuron | |
| Transcripts that showed significantly increased expression in daf-16(mu86);daf-2(e1370) neurons comparing to in daf-2(e1370) neurons at day 8adult stage. | DESeq2, FDR < 0.05, fold change > 2. | WBPaper00066978:daf-16(mu86)_upregulated_neuron | |
| Transcripts that showed significantly decreased expression glp-1(e2141); TU3401 animals comparing to in TU3401 animals. | Fold change > 2, FDR < 0.01. | WBPaper00065993:glp-1(e2141)_downregulated | |
| Transcripts that showed significantly decreased expression in ogt-1(ok1474) neuronal cells isolated by FACs comparing to in FACs isolated neuronal cells from wild type. | DESeq2, fold change > 2, FDR < 0.05. | WBPaper00066485:ogt-1(ok1474)_downregulated_neuron | |
| Transcripts that showed significantly decreased expression after 24 hours of induction of human beta Amyloid at young adult stage | A 2-fold change in expression level and a false discovery rate analog of p < 0.05. | WBPaper00064130:Beta-Amyloid_24h_downregulated_mRNA | |
| Transcripts that showed significantly increased expression in shk-1(yum1003) comparing to in N2 animals. | DESeq2 v1.36.0, fold change > 2, FDR < 0.05. | WBPaper00067803:shk-1(yum1003)_upregulated | |
| Transcripts that showed significantly increased expression in elli-1(sam-3) comparing to in N2 animals, accordingto tiling array analysis. | Fold change > 1.2, q-value < 0.05. | WBPaper00050743:elli-1(sam-3)_downregulated | |
| Transcripts that showed lower expression in neurons isolated from male day 2 vs day 8. | DESeq2 analysis was then employed for read normalization and differential expression analysis of the counted reads. PCA analysiswas performed along with the DESeq2 package. Genes with a log2(fold-change) > 1 and p-adjusted < 0.05 were considered differentially expressed in subsequent analysis. | WBPaper00066831:male-neuron_aging_upregulated |
2 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr2005876 | Single cell embryonic expression. Only cell types with an expression fraction of greater 0.2 of the maximum expressed fraction are labeled (Full data can be downloaded from http://caltech.wormbase.org/pub/wormbase/datasets-published/packer2019/). The colors represent the broad cell class to which the cell type has been assigned. The size of the point is proportional to the log2 of the numbers of cells in the dataset of that cell type. Interactive visualizations are available as a web app (https://cello.shinyapps.io/celegans/) and can also be installed as an R package (https://github.com/qinzhu/VisCello.celegans). | |||
| Expr2024092 | Single cell embryonic expression. Only cell types with an expression fraction of greater 0.2 of the maximum expressed fraction are labeled (Full data can be downloaded from http://caltech.wormbase.org/pub/wormbase/datasets-published/packer2019/). The colors represent the broad cell class to which the cell type has been assigned. The size of the point is proportional to the log2 of the numbers of cells in the dataset of that cell type. Interactive visualizations are available as a web app (https://cello.shinyapps.io/celegans/) and can also be installed as an R package (https://github.com/qinzhu/VisCello.celegans). |
1 Upstream Intergenic Region
| WormBase ID | Name | Sequence Name | Length (nt) | Chromosome Location | Organism |
|---|---|---|---|---|---|
| intergenic_region_chrIV_58919..61747 | 2829 | IV: 58919-61747 | Caenorhabditis elegans |
