Genomics
4 Transcripts
| Class | WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|---|
| MRNA | Transcript:Y51H4A.938b.1 | Y51H4A.938b.1 |
291
 |
IV: 16481188-16481784 |
| MRNA | Transcript:Y51H4A.938b.2 | Y51H4A.938b.2 |
235
|
IV: 16481204-16481783 |
| MRNA | Transcript:Y51H4A.938a.1 | Y51H4A.938a.1 |
48
|
IV: 16481233-16481735 |
| NcPrimaryTranscript | Transcript:Y51H4A.938c | Y51H4A.938c |
310
|
IV: 16481233-16481735 |
Other
2 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:Y51H4A.938a | Y51H4A.938a |
48
|
IV: 16481233-16481244 |
| CDS:Y51H4A.938b | Y51H4A.938b |
132
|
IV: 16481298-16481393 |
12 Allele
| Public Name |
|---|
| gk964078 |
| gk964500 |
| gk962765 |
| gk963590 |
| gk963795 |
| gk963704 |
| gk962529 |
| gk963948 |
| gk963888 |
| WBVar01583116 |
| WBVar02056080 |
| WBVar02047469 |
1 Chromosome Location
|
Feature . Primary Identifier |
Start | End | Strand |
|---|---|---|---|
| WBGene00219244 | 16481188 | 16481784 | 1 |
1 Downstream Intergenic Region
| WormBase ID | Name | Sequence Name | Length (nt) | Chromosome Location | Organism |
|---|---|---|---|---|---|
| intergenic_region_chrIV_16481785..16482780 | 996 | IV: 16481785-16482780 | Caenorhabditis elegans |
13 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| Transcripts that showed significantly increased 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)_upregulated_neuron | |
| Transcripts that showed significantly increased expression after animals were treated with 50uM Rifampicin and 250uM Allantoin from day 1 to day 3 adult hermaphradite. | DESeq2(v1.14.1), fold change > 2, p-value < 0.05 | WBPaper00055354:Rifampicin-Allantoin_upregulated | |
| Transcripts that showed significantly decreased expression in dissected female germline comparing to in dissected male germline. | Log2 Fold change > 2 or <-1, p-value < 0.05. | WBPaper00053599:female_vs_male_downregulated | |
| 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 | |
| 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 | |
| Transcripts that showed significantly increased expression in ints-5(RNAi) comparing to in N2. | DESeq2 and edgeR. | WBPaper00056284:ints-5(RNAi)_upregulated | |
| Transcripts that showed significantly increased expression in xpf-1(tm2842) comparing to in N2 animals. | DESeq2 1.14.1, fold change > 2, FDR < 0.01. | WBPaper00062497:xpf-1(tm2842)_upregulated | |
| Transcripts that showed significantly increased expression in 10-days post L4 adult hermaphrodite npr-8(ok1439) animals grown at 20C, comparing to in N2 animals. | CuffDiff, fold change > 2. | WBPaper00065096:npr-8(ok1439)_upregulated_Day10_20C | |
| Transcripts that showed significantly increased expression in nhl-2(ok818) comparing to in N2 at 25C. | EdgeR, FDR < 0.05, fold change < 0.5. | WBPaper00055971:nhl-2(ok818)_25C_downregulated | |
| 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 | |
| moderate static magnetic field | Transcripts that showed significantly increased expression after exposure to moderate static magnetic field. | N.A. | WBPaper00064509:static-magnetic-field_upregulated |
| Top 300 transcripts enriched in AVJL, AVJR 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:AVJ | |
| Top 300 transcripts enriched in arcade 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:Arcade_cell_anterior_and_posterior |
3 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr2026037 | 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). | |||
| Expr2007797 | 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). | |||
| Expr1160633 | Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015 |