Genomics
1 Transcripts
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| Transcript:C53A3.3.1 | C53A3.3.1 |
120
 |
V: 5756493-5756657 |
Other
1 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:C53A3.3 | C53A3.3 |
120
|
V: 5756493-5756545 |
10 Allele
| Public Name |
|---|
| gk963301 |
| gk963591 |
| gk963553 |
| gk964259 |
| gk964351 |
| gk963850 |
| WBVar01862397 |
| gk962695 |
| gk710045 |
| WBVar01740321 |
1 Chromosome Location
|
Feature . Primary Identifier |
Start | End | Strand |
|---|---|---|---|
| WBGene00044543 | 5756493 | 5756657 | 1 |
1 Downstream Intergenic Region
| WormBase ID | Name | Sequence Name | Length (nt) | Chromosome Location | Organism |
|---|---|---|---|---|---|
| intergenic_region_chrV_5756658..5758216 | 1559 | V: 5756658-5758216 | Caenorhabditis elegans |
5 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| Bacteria infection: Photorhabdus luminescens | Genes with increased expression after 24 hours of infection by P.lumniescens 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:P.lumniescens_24hr_upregulated_TilingArray |
| Transcripts that showed significantly increased expression in pmt-2(RNAi) animals comparing to control animals iinjected with empty vector. | Fold-change > 1.5, ANOVA P values < 0.05. | WBPaper00055482:pmt-2(RNAi)_upregulated | |
| Genes that showed flat mRNA expression level throughout the 16 hour time courses from L3 larva to young adult. | The following three lines of R code were used to perform the classification: increasing <-2*amplitude-PC1 < -1.7; oscillating <-!increasing & (amplitude > 0.55); flat <-!increasing & !oscillating; Note that the amplitude of a sinusoidal wave corresponds to only half the fold change between trough and peak. | WBPaper00044736:flat_dev_expression | |
| Down-regulated genes (fold change > 1.5) in two CoQ-deficient clk-1 mutant strains (e2519, qm30) compared to wild types N2. | Fold-changes of intensities were calculated from the arithmetic mean of gene expression values between experimental and corresponding control group. Fold change >= 1.5 was used as cut-off. | WBPaper00045774:clk-1_downregulated | |
| Transcripts that showed significantly decreased expression in drh-3(rrr2) comparing to in N2. | edgeR, log2 fold change > 2 or < -2. | WBPaper00053888:drh-3(rrr2)_downregulated |
2 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr1010417 | Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/levin2012 | |||
| Expr1147018 | 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_5755254..5756492 | 1239 | V: 5755254-5756492 | Caenorhabditis elegans |
