Genomics
1 Transcripts
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| Transcript:T11F9.22.1 | T11F9.22.1 |
226
 |
V: 11479706-11479976 |
Other
1 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:T11F9.22 | T11F9.22 |
201
|
V: 11479706-11479801 |
12 Allele
| Public Name |
|---|
| gk963271 |
| gk963301 |
| gk964458 |
| gk964459 |
| gk964451 |
| gk964452 |
| gk963618 |
| gk621517 |
| WBVar01974833 |
| gk247533 |
| gk247534 |
| gk247532 |
1 Chromosome Location
|
Feature . Primary Identifier |
Start | End | Strand |
|---|---|---|---|
| WBGene00194784 | 11479706 | 11479976 | 1 |
1 Downstream Intergenic Region
| WormBase ID | Name | Sequence Name | Length (nt) | Chromosome Location | Organism |
|---|---|---|---|---|---|
| intergenic_region_chrV_11479977..11480696 | 720 | V: 11479977-11480696 | Caenorhabditis elegans |
11 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| Transcripts that showed significantly decreased expression in dissected female germline comparing to in dissected male germline. | Log2 Fold change > 2 or <-1, p-value < 0.05. | WBPaper00053599:female_vs_male_downregulated | |
| Transcripts that showed significantly decreased expression in hpl-2(tm1489) comparing to in N2 animals. | DESeq2, adjusted p-value < 0.05, log2 fold change > 2 or < -2. | WBPaper00054493:hpl-2(tm1489)_downregulated | |
| Transcripts that showed significantly increased expression in cfp-1(tm6369) comparing to in N2 at early embryo stage. | DESeq2, FDR < 0.05 | WBPaper00058691:cfp-1(tm6369)_upregulated | |
| Single-cell RNA-Seq cell group 141_0 expressed in glia. | scVI 0.6.0 | WBPaper00065841:141_0 | |
| Transcripts that showed significantly increased expression in nhl-2(ok818) comparing to in N2 at 25C. | EdgeR, FDR < 0.05, fold change < 0.5. | WBPaper00055971:nhl-2(ok818)_25C_downregulated | |
| Top 300 transcripts enriched in MC neuron, MCL, MCR 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:MC | |
| 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 |
| Transcripts that showed significantly increased expression in ints-9(RNAi) comparing to in N2. | DESeq2 and edgeR. | WBPaper00056284:ints-9(RNAi)_upregulated | |
| Single-cell RNA-Seq cell group 123_0 expressed in neuron. | scVI 0.6.0 | WBPaper00065841:123_0 | |
| Single-cell RNA-Seq cell group 79_1 expressed in excretory. | scVI 0.6.0 | WBPaper00065841:79_1 |
3 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr2024324 | 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). | |||
| Expr1156731 | Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015 | |||
| Expr2006110 | 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_11479244..11479705 | 462 | V: 11479244-11479705 | Caenorhabditis elegans |
