Genomics
1 Transcripts
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| Transcript:F36D1.15.1 | F36D1.15.1 |
294
 |
I: 11268619-11268958 |
Other
1 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:F36D1.15 | F36D1.15 |
294
|
I: 11268619-11268765 |
12 Allele
| Public Name |
|---|
| gk962858 |
| gk962706 |
| gk963849 |
| h14520 |
| gk963906 |
| gk963137 |
| WBVar01284580 |
| WBVar01898121 |
| gk585955 |
| WBVar01284582 |
| WBVar01284581 |
| WBVar01284585 |
1 Chromosome Location
|
Feature . Primary Identifier |
Start | End | Strand |
|---|---|---|---|
| WBGene00195232 | 11268619 | 11268958 | 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_chrI_11268959..11269924 | 966 | I: 11268959-11269924 | Caenorhabditis elegans |
10 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| Transcripts that showed differential expression between 24 and 26 hours post hatching L2d and dauer committed larvae of daf-9(dh, triggered by the dafachronic acid (DA) growth hormone6). Cluster 2 genes' expression gradually increased into dauer. | Benjamini Hochberg corrected q-value < 0.01. | WBPaper00053388:dauer_regulated_Cluster2 | |
| Transcripts that showed significantly increased expression in daf-2(e1370) neurons comparing to in N2 neurons at day 8adult stage. | DESeq2, FDR < 0.05, fold change > 2. | WBPaper00066978:daf-2(e1370)_upregulated_neuron | |
| Transcripts that showed significantly increased expression in daf-16(mu86);daf-2(e1370) neurons comparing to in daf-2(e1370) neurons at day 8adult stage. | DESeq2, FDR < 0.05, fold change > 2. | WBPaper00066978:daf-16(mu86)_upregulated_neuron | |
| Transcripts that showed significantly decreased expression in daf-2(e1370); daf-18(yh1) comparing to in daf-2(e1370) animals. | Differentially expressed genes (fold change > 2 and adjusted p value < 0.05) were identified by using DESeq2 (v.1.22.2). | WBPaper00061952:daf-18(yh1)_downregulated | |
| 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 | |
| moderate static magnetic field | Transcripts that showed significantly increased expression after exposure to moderate static magnetic field. | N.A. | WBPaper00064509:static-magnetic-field_upregulated |
| Transcripts that showed significantly decreased 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)_downregulated | |
| Transcripts that showed significantly increased expression in daf-2(e1370) comparing to in N2. | Limma version 3.24.15. Fold change < 0.67 (p < 0.05). | WBPaper00055827:daf-2(e1370)_upregulated | |
| Top 300 transcripts enriched in excretory gland cell 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:Excretory_gland | |
| Single-cell RNA-Seq cell group 89_0 expressed in gland. | scVI 0.6.0 | WBPaper00065841:89_0 |
3 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr2021586 | 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). | |||
| Expr1150335 | Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015 | |||
| Expr2003374 | 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_chrI_11268410..11268618 | 209 | I: 11268410-11268618 | Caenorhabditis elegans |
