Genomics
1 Transcripts
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| Transcript:M162.15.1 | M162.15.1 |
216
 |
V: 19771493-19771760 |
Other
1 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:M162.15 | M162.15 |
117
|
V: 19771523-19771590 |
16 Allele
| Public Name |
|---|
| gk963271 |
| gk962705 |
| gk963489 |
| gk963304 |
| WBVar02124642 |
| gk963809 |
| gk963637 |
| WBVar02124977 |
| WBVar02122273 |
| WBVar02122709 |
| WBVar02120534 |
| WBVar02121328 |
| gk265496 |
| gk265497 |
| gk743115 |
| gk331856 |
1 Chromosome Location
|
Feature . Primary Identifier |
Start | End | Strand |
|---|---|---|---|
| WBGene00206535 | 19771493 | 19771760 | -1 |
1 Downstream Intergenic Region
| WormBase ID | Name | Sequence Name | Length (nt) | Chromosome Location | Organism |
|---|---|---|---|---|---|
| intergenic_region_chrV_19771299..19771492 | 194 | V: 19771299-19771492 | Caenorhabditis elegans |
9 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| Genes up regulated by Tryptophan. | Differentially expressed genes had a fold change cutoff of 2.0 and an unpaired t test p value cutoff of 0.05 for WT+Trp versus WT and 0.01 for nhr-114 versus glp-1. | WBPaper00042194:Tryptophan_upregulated | |
| Bacteria: Pseudomonas donghuensis HYS | Transcripts that showed significantly increased expression after 24 hours of infection by Pseudomonas donghuensis HYS, comparing to control animals exposed to OP50. | DESeq2, fold change > 2, FDR < 0.05. | WBPaper00068216:HYS_vs_OP50_upregulated |
| Bacteria: Pseudomonas donghuensis HYS | Transcripts that showed significantly decreased expression after 24 hours of infection by Pseudomonas donghuensis HYS with deletion of ferric uptake regulator (FUR), comparing to control animals exposed to HYS. | DESeq2, fold change > 2, FDR < 0.05. | WBPaper00068216:FUR_vs_HYS_downregulated |
| Transcripts that interact with both BAZ-2 and SET-6 in Chip-Seq analysis. | N.A. | WBPaper00059356:BAZ-2_SET-6_interacting | |
| Genes with small RNAs downregulated in all four meg-3(ax3055) meg-4(ax3052) strains comparing to N2 | DESeq2 | WBPaper00057162:meg-3_meg-4_downregulated_sRNA | |
| Transcripts that showed significantly decreased expression in daf-2(e1370) comparing to in N2. | Student's t-test, fold change > 2, p-value < 0.05. | WBPaper00055386:daf-2(e1370)_downregulated | |
| Transcripts that showed significantly decreased expression in eat-2(ad465) comparing to in N2. | Student's t-test, fold change > 2, p-value < 0.05. | WBPaper00055386:eat-2(ad465)_downregulated | |
| Transcripts that showed significantly decreased expression in daf-1(m40);daf-3(mgDf90) comparing to in N2 at 1-day post L4 adult hermaphrodite animals. | CuffDiff fold change >= 2, q < 0.05. | WBPaper00059421:daf-1(m40);daf-3(mgDf90)_downregulated | |
| Genes down regulated in nhr-114(RNAi) comparing to glp-1(q224ts). | Differentially expressed genes had a fold change cutoff of 2.0 and an unpaired t test p value cutoff of 0.05 for WT+Trp versus WT and 0.01 for nhr-114 versus glp-1. | WBPaper00042194:nhr-114(RNAi)_downregulated |
3 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr2023468 | 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). | |||
| Expr1154684 | Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015 | |||
| Expr2005250 | 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_chrV_19771761..19773400 | 1640 | V: 19771761-19773400 | Caenorhabditis elegans |
