Genomics
1 Transcripts
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| Transcript:Y106G6E.8.1 | Y106G6E.8.1 |
180
 |
I: 10203437-10203743 |
Other
1 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:Y106G6E.8 | Y106G6E.8 |
180
|
I: 10203437-10203515 |
12 Allele
| Public Name |
|---|
| gk962858 |
| gk962706 |
| gk963902 |
| gk963849 |
| gk315193 |
| WBVar02121691 |
| gk454713 |
| WBVar02124861 |
| gk630925 |
| WBVar02123648 |
| WBVar02123169 |
| WBVar02124147 |
1 Chromosome Location
|
Feature . Primary Identifier |
Start | End | Strand |
|---|---|---|---|
| WBGene00219498 | 10203437 | 10203743 | 1 |
1 Downstream Intergenic Region
| WormBase ID | Name | Sequence Name | Length (nt) | Chromosome Location | Organism |
|---|---|---|---|---|---|
| intergenic_region_chrI_10203744..10220454 | 16711 | I: 10203744-10220454 | Caenorhabditis elegans |
12 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| Transcripts expressed in vulva. | FPKM >= 1. | WBPaper00064122:vulva_transcriptome | |
| Transcripts that showed significantly increased expression in daf-2(e1370) comparing to in N2. | Student's t-test, fold change > 2, p-value < 0.05. | WBPaper00055386:daf-2(e1370)_upregulated | |
| siRNAs that showed significantly lower expression (log2fold > 2, padj < 0.01) in hermaphrodite gonad (somatic gonad plus germine) than in male gonad (somatic gonad plus germine). | DESeq2 v1.13.8, fold change > 2, FDR < 0.01. | WBPaper00056161:male_enriched_siRNA | |
| Transcripts that showed significantly increased expression in eat-2(ad465) comparing to in N2. | Student's t-test, fold change > 2, p-value < 0.05. | WBPaper00055386:eat-2(ad465)_upregulated | |
| Transcripts that showed significantly increased expression in zcIs13; twnEx320[Punc-119-ds-fzo-1] comparing to in zcIs13[Phsp-6-gfp] animals. | Fold change >= 1.5. | WBPaper00061409:neuronal-fzo-1(RNAi)_upregulated | |
| Transcripts that showed significantly decreased expression in mrps-5(RNAi) animals comparing to animals injected with empty vector. | Differential expression was assessed using a Partial least-squares discriminant analysis (PLS-DA) using mixomics setting a variable of importance (VIP) score of greater than 1 as significant. | WBPaper00059328:mrps-5(RNAi)_downregulated_mRNA | |
| Transcripts that showed significantly decreased expression in adr-1(tm668) comparing to in N2 at L4 larva stage. | DESeq2, fold change > 2, FDR < 0.05. | WBPaper00066511:adr-1(tm668)_downregulated | |
| Single-cell RNA-Seq cell group 6_3 expressed in neuron. | scVI 0.6.0 | WBPaper00065841:6_3 | |
| Top 300 transcripts enriched in g1AL, g1AR, g1P 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:g1A_g1P | |
| Transcripts interacting with LAG-1 at L4 larva stage in germline ChIP-Seq analysis. | edgeR fold change >= 2, FDR <= 0.05. | WBPaper00059440:LAG-1_interacting_germline | |
| Transcripts that showed significantly increased expression in ADL neurons of qui-1(db104) comparing to in N2 at day 1 adult stage. | tximport 1.14.2 and DEseq2 1.26.0. Fold change > 2, FDR < 0.05. | WBPaper00062520:qui-1(db104)_upregulated | |
| Single-cell RNA-Seq cell group 19_0 expressed in neuron. | scVI 0.6.0 | WBPaper00065841:19_0 |
2 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr2025215 | 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). | |||
| Expr2006993 | 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). |