Genomics
1 Transcripts
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| Transcript:T09A12.8.1 | T09A12.8.1 |
147
 |
IV: 8241545-8243699 |
Other
1 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:T09A12.8 | T09A12.8 |
147
|
IV: 8241545-8241652 |
35 Allele
| Public Name |
|---|
| gk964278 |
| gk964500 |
| gk962765 |
| gk963722 |
| gk963417 |
| WBVar02121210 |
| otn1855 |
| WBVar02036963 |
| gk511818 |
| gk523682 |
| gk586957 |
| gk908002 |
| gk454957 |
| gk654887 |
| gk885451 |
| gk902122 |
| gk383690 |
| gk403956 |
| gk564672 |
| gk824905 |
| gk681665 |
| gk525265 |
| gk740211 |
| gk321219 |
| gk608679 |
| gk206935 |
| gk206931 |
| gk206932 |
| gk206933 |
| gk206934 |
1 Chromosome Location
|
Feature . Primary Identifier |
Start | End | Strand |
|---|---|---|---|
| WBGene00235275 | 8241545 | 8243699 | -1 |
1 Downstream Intergenic Region
| WormBase ID | Name | Sequence Name | Length (nt) | Chromosome Location | Organism |
|---|---|---|---|---|---|
| intergenic_region_chrIV_8236603..8241544 | 4942 | IV: 8236603-8241544 | Caenorhabditis elegans |
10 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| Transcripts that showed significantly increased expression glp-1(e2141); TU3401 animals comparing to in TU3401 animals. | Fold change > 2, FDR < 0.01. | WBPaper00065993:glp-1(e2141)_upregulated | |
| Transcripts that showed significantly increased expression in csr-1a(tor159) comparing to in N2 at 25C. | DESeq2, fold change > 2, p-value < 0.05. | WBPaper00061753:csr-1(tor159)_upregulated_25C | |
| Transcripts that showed significantly increased expression in ilc-17.1(syb5296) comparing to in N2 animals at L4 larva stage. | DESeq2, fold change > 2, FDR < 0.05. | WBPaper00066594:ilc-17.1(syb5296)_upregulated | |
| Temprature shift to 28C for 24 hours. | Transcripts that showed significantly increased expression after animals were exposed to 28C temperature for 24 hours. | Differentially expressed genes wereidentified using DESeq (v.1.18.0) by normalizing readsbased on the negative binomial distribution method andcomparing each HS timepoint to the 0-h control. | WBPaper00061341:28C_24h_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 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)_downregulated_neuron | |
| Top 300 transcripts enriched in MSaapaapa, MSpapaapa 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_parent | |
| Transcripts that showed signifcantly decreased expression in ubr-5(miy31);pabp-2(RNAi) comparing to in pabp-2(RNAi) animals. | FDR < 0.05, fold change > 2 | WBPaper00067368:ubr-5(miy31)_downregulated_pabp-2(RNAi) | |
| Transcripts that showed significantly decreased expression after exposure to 75uM paraquat(PQ) from L1 to day 2 adult stage in skn-1(lax188) animals | fold change > 2 | WBPaper00058711:paraquat_downregulated | |
| Top 300 transcripts enriched in g2L, g2R 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:g2 |
2 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr2006022 | 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). | |||
| Expr2024237 | 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_chrIV_8243700..8244411 | 712 | IV: 8243700-8244411 | Caenorhabditis elegans |
