Genomics
1 Transcripts
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| Transcript:C09G12.15.1 | C09G12.15.1 |
903
 |
IV: 3475646-3477224 |
Other
1 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:C09G12.15 | C09G12.15 |
903
|
IV: 3475646-3475849 |
34 Allele
| Public Name |
|---|
| gk963722 |
| gk964245 |
| gk964246 |
| WBVar00187379 |
| WBVar00187378 |
| WBVar00187377 |
| WBVar00187376 |
| WBVar00187375 |
| WBVar00187374 |
| WBVar00187373 |
| gk675865 |
| gk575059 |
| gk851113 |
| gk525242 |
| gk387452 |
| gk575060 |
| gk845555 |
| gk937373 |
| gk760668 |
| gk670382 |
| gk882933 |
| gk464128 |
| WBVar00571298 |
| WBVar00571294 |
| gk198111 |
| gk198110 |
| gk198109 |
| gk198108 |
| gk198107 |
| WBVar01726999 |
1 Chromosome Location
|
Feature . Primary Identifier |
Start | End | Strand |
|---|---|---|---|
| WBGene00023475 | 3475646 | 3477224 | -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_3473585..3475645 | 2061 | IV: 3473585-3475645 | Caenorhabditis elegans |
5 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| 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 | |
| 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 |
| Transcripts that showed significantly increased expression in nfki-1(cer1) animals at L1 larva stage, comparing to in N2 animals. | Differentially expressed genes between wild type and knockouts were explored using DESeq2 R package (v.1.20.0) considering a threshold of adjusted p value < 0.01. | WBPaper00060445:nfki-1(cer1)_upregulated_L1 | |
| Single-cell RNA-Seq cell group 116_0 expressed in neuron. | scVI 0.6.0 | WBPaper00065841:116_0 | |
| Transcripts that showed significantly decreased expression in spr-5(by101);met-2(n4256) L1 animals comparing to in N2 control. | DeSeq2 (v.2.11.40.2), p < 0.05. | WBPaper00060886:spr-5(by101);met-2(n4256)_downregulated |
1 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr2016913 | 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_3477225..3477391 | 167 | IV: 3477225-3477391 | Caenorhabditis elegans |
