Genomics
1 Transcripts
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| Transcript:C49F5.13.1 | C49F5.13.1 |
586
 |
X: 11961403-11962036 |
Other
1 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:C49F5.13 | C49F5.13 |
78
|
X: 11961791-11961809 |
21 Allele
| Public Name |
|---|
| gk964260 |
| gk964029 |
| gk962707 |
| gk964028 |
| gk963810 |
| tm11477 |
| gk881162 |
| gk655984 |
| gk709689 |
| WBVar01987870 |
| WBVar01987871 |
| WBVar01621190 |
| h5059 |
| WBVar01471418 |
| WBVar01571146 |
| WBVar01471416 |
| WBVar01471417 |
| gk295325 |
| gk295324 |
| gk327690 |
| gk295323 |
1 Chromosome Location
|
Feature . Primary Identifier |
Start | End | Strand |
|---|---|---|---|
| WBGene00268215 | 11961403 | 11962036 | 1 |
1 Downstream Intergenic Region
| WormBase ID | Name | Sequence Name | Length (nt) | Chromosome Location | Organism |
|---|---|---|---|---|---|
| intergenic_region_chrX_11962037..11962412 | 376 | X: 11962037-11962412 | Caenorhabditis elegans |
8 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| Transcripts that showed significantly increased 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)_upregulated_neuron | |
| moderate static magnetic field | Transcripts that showed significantly decreased expression after exposure to moderate static magnetic field. | N.A. | WBPaper00064509:static-magnetic-field_downregulated |
| Transcripts that showed significantly increased expression in sdc-3(ubs20);dpy-26(ubs4) comparing to in control animals. | DESeq2 v.1.34, fold change > 2, FDR < 0.05. | WBPaper00067078:sdc-3(ubs20);dpy-26(ubs4)_upregulated | |
| Transcripts that showed significantly decreased expression in mrps-5(RNAi) animals comparing to animals injected with empty vector. | Differential expression was assessed using a Partial least-squares discriminant analysis (PLS-DA) using mixomics setting a variable of importance (VIP) score of greater than 1 as significant. | WBPaper00059328:mrps-5(RNAi)_downregulated_mRNA | |
| Transcripts that showed significantly increased expression in strain GC1459 containing daf-18(ok480) comparing to control strain GC1171. | edgeR, p-value < 0.05, fold change > 2. | WBPaper00061699:daf-18(ok480)_upregulated | |
| Top 300 transcripts enriched in Caaaaa, Caaaap, Caaapa, Caaapp, Caappd, Cpaaaa, Cpaaap, Cpaapa, Cpaapp, Cpapaa, Cpapap, Cpappd according to single cell RNAseq. | Top 300 enriched transcripts were determined by log2.ratio of the tpm in the cell type vs the tpm in the other cells * the log2 of the cell.type tpm. | WBPaper00061340:hyp7_C_lineage | |
| Top 300 transcripts enriched in ventral cord blast cell according to single cell RNAseq. | Top 300 enriched transcripts were determined by log2.ratio of the tpm in the cell type vs the tpm in the other cells * the log2 of the cell.type tpm. | WBPaper00061340:P_cell | |
| Transcripts that showed significantly increased expression in dpy-26(ubs4) comparing to in control animals. | DESeq2 v.1.34, fold change > 2, FDR < 0.05. | WBPaper00067078:dpy-26(ubs4)_upregulated |
2 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr2020004 | 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). | |||
| Expr2001776 | 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). |