Genomics
2 Transcripts
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| Transcript:C41G6.8a.1 | C41G6.8a.1 |
804
 |
V: 15225950-15227472 |
| Transcript:C41G6.8b.1 | C41G6.8b.1 |
945
|
V: 15225950-15227046 |
Other
2 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:C41G6.8a | C41G6.8a |
804
|
V: 15225950-15226548 |
| CDS:C41G6.8b | C41G6.8b |
945
|
V: 15225950-15226548 |
32 Allele
| Public Name |
|---|
| gk963271 |
| gk963301 |
| gk964458 |
| gk964459 |
| gk964036 |
| WBVar02024747 |
| WBVar01590551 |
| h14990 |
| WBVar01744807 |
| WBVar01744808 |
| WBVar01744809 |
| gk255363 |
| WBVar00602986 |
| WBVar00019155 |
| WBVar02049993 |
| WBVar01463333 |
| WBVar01463331 |
| WBVar01463332 |
| gk383767 |
| gk637503 |
| gk654552 |
| gk760806 |
| gk668538 |
| gk456266 |
| gk255362 |
| gk901348 |
| gk255361 |
| gk488320 |
| gk255360 |
| gk691002 |
1 Chromosome Location
|
Feature . Primary Identifier |
Start | End | Strand |
|---|---|---|---|
| WBGene00005761 | 15225950 | 15227472 | 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_chrV_15227473..15228091 | 619 | V: 15227473-15228091 | Caenorhabditis elegans |
11 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| adult vs dauer larva | Transcripts that showed differential expression in adult vs dauer lava in N2 animals at 20C. | N.A. | WBPaper00050488:adult_vs_dauer_regulated_N2_20C |
| Coexpression clique No. 203, sre-33-ZK1025.1_8337, on the genome-wide coexpression clique map for the nematode GPL200 platform. | All available microarray datasets for the GPL200 platform (Affymetrix C. elegans Genome Array) were obtained from the GEO repository. This included 2243 individual microarray experiments. These were normalized against each other with the software RMAexpress (Bolstad, 2014). Based on these normalized values, Pearsons correlation coefficients were obtained for each probe-probe pair of the 22,620 probes represented on this array type. The resulting list of correlation coefficients was then ranked to generate the ranked coexpression database with information on each probe represented on the GPL200 platform. | WBPaper00061527:sre-33-ZK1025.1_8337 | |
| Genes significantly enriched in NSM neurons (isolated by FACS) versus the reference, according to tiling array analysis towards total RNA. | A linear model and moderated t-statistic were used to determine differentially expressed genes as implemented by the limma package (v3.21.4). Enriched list contains only genes significantly enriched in the NSM neurons versus the reference <=1.5X and <= 5% FDR. | WBPaper00045974:NSM_enriched_totalRNA_tiling | |
| Genes found to be regulated by low-copy overexpression of sir-2.1 with p < 0.014. | N.A. | WBPaper00026929:sir-2.1_overexpression_regulated | |
| Transcripts that showed differential expression in dauer mir-34(gk437) vs dauer mir-34(OverExpression) animals at 20C. | N.A. | WBPaper00050488:mir-34(gk437)_vs_mir-34(OverExpression)_regulated_dauer_20C | |
| Genes found to be regulated in daf-16(mgDf50) by resveratrol treatment with p < 0.01. | N.A. | WBPaper00026929:Resveratrol_regulated_daf-16 | |
| Transcripts that showed differential expression in dauer N2 vs dauer mir-34(gk437) animals at 20C. | N.A. | WBPaper00050488:N2_vs_mir-34(gk437)_regulated_dauer_20C | |
| Transcripts that showed significantly decreased expression in mex-1(or286) comparing to in N2 at early embryo when there were only 3 -5 eggs in the adult. | RPKM fold change > 2. | WBPaper00058598:mex-1(or286)_downregulated | |
| Transcripts that showed significantly decreased expression in mex-3(eu149) comparing to in N2 at early embryo when there were only 3 -5 eggs in the adult. | RPKM fold change > 2. | WBPaper00058598:mex-3(eu149)_downregulated | |
| Transcripts that showed significantly decreased expression in spn-4(tm291) comparing to in N2 at early embryo when there were only 3 -5 eggs in the adult. | RPKM fold change > 2. | WBPaper00058598:spn-4(tm291)_downregulated | |
| Top 300 transcripts enriched in ABplpapapa, ABprpapapa 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:Parent_of_exc_gland_AVK |
3 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr2034938 | 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). | |||
| Expr1146301 | Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015 | |||
| Expr2016759 | 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). |