Genomics
1 Transcripts
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| Transcript:Y47C4A.1.1 | Y47C4A.1.1 |
1167
 |
X: 279717-286216 |
Other
1 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:Y47C4A.1 | Y47C4A.1 |
1167
|
X: 279717-279791 |
47 Allele
| Public Name |
|---|
| gk963652 |
| gk962800 |
| WBVar02121672 |
| WBVar02123728 |
| gk964065 |
| gk964321 |
| WBVar02123605 |
| WBVar02121497 |
| WBVar02123548 |
| WBVar02122173 |
| WBVar02122719 |
| WBVar02121057 |
| WBVar02063462 |
| WBVar01600261 |
| WBVar00247293 |
| WBVar01978964 |
| gk337271 |
| gk684120 |
| gk846256 |
| gk774830 |
| gk426366 |
| gk363706 |
| gk591897 |
| gk532415 |
| gk884133 |
| gk848533 |
| gk594688 |
| gk798864 |
| gk845135 |
| gk536520 |
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_chrX_277845..279716 | 1872 | X: 277845-279716 | Caenorhabditis elegans |
7 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| Transcripts that showed significantly decreased expression in daf-16(mgDf50) comparing to in N2 at L1 larva stage. | DESeq v1.20.0 was used to analyze differential gene expression. Transcripts with adjusted p-value < 0.05 were considered differentialled expressed. | WBPaper00048971:daf-16(mgDf50)_downregulated_L1 | |
| Genes that were not enriched in either spermatogenic fem-3(q96gf) nor oogenic fog-2(q71) gonads, according to RNAseq analysis. | To identify differentially expressed transcripts, authors used R/Bioconductor package DESeq. | WBPaper00045521:Gender_Neutral | |
| Transcripts that showed significantly decreased expression in emb-4(hc60) comparing to in N2. | DESeq2 | WBPaper00052884:emb-4(hc60)_downregulated | |
| Genes identified by ChIP-Seq analysis that are detected in both klf-1 overexpressor worms and isp-1;ctb-1 mutants | N.A. | WBPaper00059194:KLF-1_interacting | |
| Genes that showed significantly decreased expression level in rsr-2(RNAi) animals comparing to in gfp(RNAi) control. | Fold change > 1.2 or < 0.8. | WBPaper00042477:rsr-2(RNAi)_downregulated_TilingArray | |
| Transcripts that showed significantly decreased expression in animals lacking P granules by RNAi experiments targeting pgl-1, pgl-3, glh-1 and glh-4, and unc-119-GFP(+), comparing to in control animals, at 2-day post L4 adult hermaphrodite stage. | DESeq2, Benjamini-Hochberg multiple hypothesis corrected p-value < 0.05 and fold change > 2. | WBPaper00050859:downregulated_P-granule(-)GFP(+)_vs_control_day2-adult | |
| Transcripts that showed significantly decreased expression in hlh-26(ok1453) animals exposed to E. faecium for 8 hours, comparing to N2 animals exposed to E. faecium for 8 hours. | Fold change > 2. | WBPaper00062585:hlh-26(ok1453)_downregulated_E.faecium |
1 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr1160194 | Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015 |
14 GO Annotation
| Annotation Extension | Qualifier |
|---|---|
| enables | |
| enables | |
| enables | |
| located_in | |
| located_in | |
| part_of | |
| enables | |
| enables | |
| enables | |
| enables | |
| enables | |
| involved_in | |
| involved_in | |
| involved_in |
14 Ontology Annotations
| Annotation Extension | Qualifier |
|---|---|
| enables | |
| enables | |
| enables | |
| located_in | |
| located_in | |
| part_of | |
| enables | |
| enables | |
| enables | |
| enables | |
| enables | |
| involved_in | |
| involved_in | |
| involved_in |
1 Upstream Intergenic Region
| WormBase ID | Name | Sequence Name | Length (nt) | Chromosome Location | Organism |
|---|---|---|---|---|---|
| intergenic_region_chrX_286217..287771 | 1555 | X: 286217-287771 | Caenorhabditis elegans |
