Genomics
1 Transcripts
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| Transcript:Y57G11C.28.1 | Y57G11C.28.1 |
858
 |
IV: 14929721-14931931 |
Other
1 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:Y57G11C.28 | Y57G11C.28 |
858
|
IV: 14929721-14929794 |
60 Allele
| Public Name |
|---|
| gk964078 |
| gk963546 |
| gk963547 |
| gk964500 |
| gk962765 |
| gk963590 |
| gk963795 |
| gk963948 |
| WBVar02123398 |
| WBVar02124710 |
| WBVar02124363 |
| WBVar02077821 |
| WBVar02124022 |
| WBVar02122623 |
| gk964285 |
| WBVar00247794 |
| WBVar00247795 |
| WBVar00247796 |
| WBVar00247791 |
| WBVar00247792 |
| WBVar00247793 |
| gk443004 |
| WBVar00576808 |
| h10365 |
| h4075 |
| gk757571 |
| gk868119 |
| gk666135 |
| gk605062 |
| gk487679 |
1 Chromosome Location
|
Feature . Primary Identifier |
Start | End | Strand |
|---|---|---|---|
| WBGene00014924 | 14929721 | 14931931 | 1 |
3 Data Sets
| Name | URL |
|---|---|
| WormBaseAcedbConverter | |
| GO Annotation data set | |
| C. elegans genomic annotations (GFF3 Gene) |
1 Downstream Intergenic Region
| WormBase ID | Name | Sequence Name | Length (nt) | Chromosome Location | Organism |
|---|---|---|---|---|---|
| intergenic_region_chrIV_14931932..14932049 | 118 | IV: 14931932-14932049 | Caenorhabditis elegans |
6 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| Top 300 transcripts enriched in excretory duct, excretory pore 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:Excretory_duct_and_pore | |
| Transcripts that showed significantly increased expression in animals lacking P granules by RNAi experiments targeting pgl-1, pgl-3, glh-1 and glh-4, and unc-119-GFP(-), comparing to in control animals, at 2-day post L4 adult hermaphrodite stage. | DESeq2, Benjamini-Hochberg multiple hypothesis corrected p-value < 0.05 and fold change > 2. | WBPaper00050859:upregulated_P-granule(-)GFP(-)_vs_control_day2-adult | |
| Transcripts that showed significantly increased expression in ints-5(RNAi) comparing to in N2. | DESeq2 and edgeR. | WBPaper00056284:ints-5(RNAi)_upregulated | |
| Transcripts that did not alter expression in smg-1(r910) and smg-1(r910) smg-2(r915) mutants comparing to in N2, but their mRNAs co-purify with SMG-2. | edgeR | WBPaper00053308:SMG-2_associated_NMD(-)_unaltered_ClassII | |
| Top 300 transcripts enriched in head mesodermal cell, MSpppaaa 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:hmc_and_homolog | |
| Transcripts that showed significantly increased expression in ints-8(RNAi) comparing to in N2. | DESeq2 and edgeR. | WBPaper00056284:ints-8(RNAi)_upregulated |
2 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr2026295 | 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). | |||
| Expr2008056 | 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_14928800..14929720 | 921 | IV: 14928800-14929720 | Caenorhabditis elegans |
