Genomics
1 Transcripts
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| Transcript:R02F11.9.1 | R02F11.9.1 |
597
 |
V: 4787466-4788448 |
Other
1 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:R02F11.9 | R02F11.9 |
528
|
V: 4787466-4787596 |
19 Allele
| Public Name |
|---|
| gk963301 |
| gk963591 |
| gk963553 |
| gk964259 |
| gk964351 |
| gk963850 |
| gk635810 |
| gk442572 |
| WBVar01650801 |
| WBVar01650800 |
| WBVar01650799 |
| WBVar02121263 |
| WBVar00091117 |
| WBVar01997684 |
| WBVar01997685 |
| WBVar01459579 |
| WBVar01459578 |
| WBVar01459577 |
| WBVar01739922 |
1 Chromosome Location
|
Feature . Primary Identifier |
Start | End | Strand |
|---|---|---|---|
| WBGene00202496 | 4787466 | 4788448 | 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_chrV_4788449..4789122 | 674 | V: 4788449-4789122 | Caenorhabditis elegans |
10 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| Transcripts that showed significantly increased expression in L1 neural cells comparing to in adult neural cells. | DESeq2 (v1.18.1) fold change > 2, P-adj<0.05, using BenjaminiHochberg correction. | WBPaper00060811:L1_vs_adult_upregulated_neural | |
| 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 | |
| Neuronally enriched transcripts according to a comparison of neuronal nuclei IP samples to total nuclei using isolation of nuclei from tagged specific cell types (INTACT) technology. | DESEQ2, fold change > 2 and FDR < 0.01. | WBPaper00062103:neuron_enriched | |
| Single-cell RNA-Seq cell group 141_0 expressed in glia. | scVI 0.6.0 | WBPaper00065841:141_0 | |
| Genes that showed significantly decreased expression after exposure to 1mg/L MWCNTs from L1 larva to young adult. | Transcripts with false discovery rate-corrected p-values < 0.05 and fold change > 2 were defined as differentially expressed. | WBPaper00049377:MWCNT_downregulated | |
| Bacteria Diet: L. plantarum with pdxH mutant vs. L. plantarum | Transcripts that showed significantly increased expression in N2 animals fed with L. plantarum with pdxH mutant, comparing to in N2 animals fed with L. plantarum. | GFold3, logFC < -1 or > 1. | WBPaper00066703:L.plantarum-pdxH_upregulated |
| Single-cell RNA-Seq cell group 34_0 expressed in glia. | scVI 0.6.0 | WBPaper00065841:34_0 | |
| Single-cell RNA-Seq cell group 64_0 expressed in hypodermis. | scVI 0.6.0 | WBPaper00065841:64_0 | |
| Transcripts that showed significantly decreased expression in animals exposed to 2.5mM ketamine since L1 larva stage. | DESeq2 (1.20.0), fold change > 2, p-value < 0.05. | WBPaper00064788:ketamine_downregulated | |
| Single-cell RNA-Seq cell group 106_0 expressed in neuron. | scVI 0.6.0 | WBPaper00065841:106_0 |
2 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr2023555 | 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). | |||
| Expr1154860 | Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015 |
1 Upstream Intergenic Region
| WormBase ID | Name | Sequence Name | Length (nt) | Chromosome Location | Organism |
|---|---|---|---|---|---|
| intergenic_region_chrV_4786198..4787465 | 1268 | V: 4786198-4787465 | Caenorhabditis elegans |
