Genomics
1 Transcripts
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| Transcript:Y113G7B.28.1 | Y113G7B.28.1 |
266
 |
V: 20195986-20196416 |
Other
1 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:Y113G7B.28 | Y113G7B.28 |
141
|
V: 20196111-20196152 |
36 Allele
| Public Name |
|---|
| gk963271 |
| WBVar02124844 |
| gk964176 |
| gk962705 |
| gk963489 |
| gk963304 |
| WBVar02122714 |
| WBVar02124642 |
| gk963809 |
| WBVar02123725 |
| gk962663 |
| WBVar02121335 |
| WBVar02120537 |
| WBVar02123547 |
| WBVar02122046 |
| WBVar01941218 |
| gk442326 |
| WBVar01941219 |
| gk429862 |
| gk798231 |
| gk760835 |
| WBVar00072521 |
| WBVar02050323 |
| WBVar02050322 |
| WBVar01525718 |
| WBVar01525719 |
| WBVar01900032 |
| WBVar00228835 |
| WBVar01525717 |
| WBVar01877504 |
1 Chromosome Location
|
Feature . Primary Identifier |
Start | End | Strand |
|---|---|---|---|
| WBGene00195242 | 20195986 | 20196416 | 1 |
1 Downstream Intergenic Region
| WormBase ID | Name | Sequence Name | Length (nt) | Chromosome Location | Organism |
|---|---|---|---|---|---|
| intergenic_region_chrV_20196417..20196970 | 554 | V: 20196417-20196970 | Caenorhabditis elegans |
11 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| Transcripts that showed significantly increased expression in 10-days post L4 adult hermaphrodite N2 grown at 20C, comparing to in 1-day post L4 adult hermaphrodite N2 animals grown at 20C. | CuffDiff, fold change > 2. | WBPaper00065096:Day10_vs_Day1_upregulated | |
| Transcripts that showed significantly decreased expression in eat-2(ad1116) comparing to in N2 at 3-days post L4 adult hermaphrodite animals. | DESeq2(v1.14.1), fold change > 2, p-value < 0.05 | WBPaper00055354:eat-2(ad1116)_downregulated | |
| Transcripts that showed significantly decreased expression in whole animal day 1 N2 adults comparing to in whole animal day 8 N2 adults. | DESeq2, FDR < 0.05, fold change > 2. | WBPaper00066978:Day1Adult_vs_Day8Adult_downregulated_neuron | |
| Top 300 transcripts enriched in ABplaaaaaa, ABarpapaaa, ABplpaaapa, ABprpaaapa 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:URA_parent | |
| Transcripts that showed significantly increased expression in csr-1(RNAi) comparing to in N2 animals fed wth empty vector. | DESeq2 v1.20.0,, fold change > 2, FDR < 0.05. | WBPaper00066919:csr-1(RNAi)_upregulated | |
| Transcripts that showed significantly decreased expression in srbc-48(ac23);kyIs262;fer-1(b232ts) comparing to in kyIs262;fer-1(b232ts), 24h after infection with P.aeruginosa. | DESeq2, FDR <0.05, fold change > 2. | WBPaper00059664:srbc-48(ac23)_downregulated | |
| Top 300 transcripts enriched in ABplpaapap, ABprpaapap 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:AMso_parent | |
| Top 300 transcripts enriched in ABarpaaa 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:ABarpaaa_lineage | |
| Top 300 transcripts enriched in tail precursor 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:T | |
| Bacteria diet: enterotoxigenic Escherichia coli (ETEC). | Transcripts that showed significantly inreased expression after young adult N2 animals were cultured with enterotoxigenic Escherichia coli (ETEC) for five days. | DESeq2, log2FC > 2 and p-value < 0.05. | WBPaper00066289:Enterotoxigenic-E.coli_upregulated |
| Transcripts that showed significantly decreased expression in 10-days post L4 adult hermaphrodite npr-8(ok1439) animals grown at 25C, comparing to in N2 animals. | CuffDiff, fold change > 2. | WBPaper00065096:npr-8(ok1439)_downregulated_Day10_25C |
3 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr2025260 | 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). | |||
| Expr1158919 | Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015 | |||
| Expr2007033 | 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). |