Genomics
1 Transcripts
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| Transcript:C06A12.8.1 | C06A12.8.1 |
632
 |
IV: 17437338-17438234 |
Other
1 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:C06A12.8 | C06A12.8 |
432
|
IV: 17437459-17437530 |
40 Allele
| Public Name |
|---|
| gk964500 |
| gk962765 |
| gk963888 |
| gk962761 |
| gk962759 |
| gk963492 |
| gk963300 |
| WBVar01970352 |
| gk962795 |
| WBVar01543089 |
| WBVar00200424 |
| WBVar00200425 |
| WBVar00200426 |
| WBVar01673584 |
| WBVar01673583 |
| WBVar01673586 |
| WBVar01673585 |
| WBVar01673588 |
| WBVar01673587 |
| WBVar01673590 |
| WBVar01673589 |
| WBVar02001042 |
| WBVar01673580 |
| WBVar01673579 |
| WBVar01673582 |
| WBVar01673581 |
| WBVar02111880 |
| gk223389 |
| gk223387 |
| gk223388 |
1 Chromosome Location
|
Feature . Primary Identifier |
Start | End | Strand |
|---|---|---|---|
| WBGene00007359 | 17437338 | 17438234 | 1 |
1 Downstream Intergenic Region
| WormBase ID | Name | Sequence Name | Length (nt) | Chromosome Location | Organism |
|---|---|---|---|---|---|
| intergenic_region_chrIV_17438235..17438394 | 160 | IV: 17438235-17438394 | Caenorhabditis elegans |
11 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| Bacteria infection: Enterococcus faecalis | Genes with increased expression after 24 hours of infection by E.faecalis Fold changes shown are pathogen vs OP50. | For RNA-seq and tiling arrays, log2 fold changes between gene expression values of infected versus uninfected nematodes were calculated. For log2 fold changes > 0.00001 the values > 81.25th percentile were defined as up-regulated and for log2 fold changes < -0.00001 the values < 18.75th percentile were defined as down-regulated. | WBPaper00038438:E.faecalis_24hr_upregulated_TilingArray |
| Proteins identified in extracellular vesicle. | N.A. | WBPaper00062669:extracellular-vesicle_protein | |
| Transcipts that showed significantly increased expression in old (days 24, 14, and 9 of adulthood) octr-1(ok371) comparing to in N2 at 25C. | DESeq2 v1.31.16, fold change > 2, FDR < 0.05 | WBPaper00068082:octr-1(ok371)_upregulated_old_25C | |
| Transcripts that showed significantly decreased expression in csr-1a(tor159) comparing to in N2 at 25C. | DESeq2, fold change > 2, p-value < 0.05. | WBPaper00061753:csr-1(tor159)_downregulated_25C | |
| Transcripts that showed significantly decreased 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)_downregulated_neuron | |
| Transcripts enriched in male him-5(e1490 animals, comparing to in N2 hermaphrodite animals from L3 larva to young adult stages. | DESeq FDR < 0.01. | WBPaper00050231:male_enriched | |
| Genes that showed significantly decreased expression level in rsr-2(RNAi) animals comparing to in gfp(RNAi) control. | Fold change > 1.2 or < 0.8. | WBPaper00042477:rsr-2(RNAi)_downregulated_TilingArray | |
| 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 expressed in male seminal vesicle, according to RNA tomography. | RNA tomography | WBPaper00055648:male-seminal-vesicle_expressed | |
| 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 | |
| Transcripts that showed significantly decreased expression in AMsh glia cells of che-2(e1033). | fold-change cut offs of >2, and an adjusted p-value threshold of < 0.05. | WBPaper00067618:che-2(e1033)_downregulated_AMsh |
4 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr1143896 | Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015 | |||
| Expr2000496 | 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). | |||
| Expr2018721 | 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). | |||
| Expr1015020 | Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/levin2012 |
1 Upstream Intergenic Region
| WormBase ID | Name | Sequence Name | Length (nt) | Chromosome Location | Organism |
|---|---|---|---|---|---|
| intergenic_region_chrIV_17436653..17437337 | 685 | IV: 17436653-17437337 | Caenorhabditis elegans |
