Genomics
2 Transcripts
| Class | WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|---|
| MRNA | Transcript:Y32B12C.2a.1 | Y32B12C.2a.1 |
1056
 |
V: 16611335-16612703 |
| NcPrimaryTranscript | Transcript:Y32B12C.2b | Y32B12C.2b |
1171
|
V: 16611335-16612703 |
Other
1 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:Y32B12C.2a | Y32B12C.2a |
1056
|
V: 16611335-16611657 |
78 Allele
| Public Name |
|---|
| gk963271 |
| WBVar02123303 |
| WBVar02124908 |
| gk964050 |
| WBVar02123708 |
| WBVar02124497 |
| WBVar02124626 |
| WBVar02124059 |
| WBVar02121634 |
| gk963302 |
| WBVar02124267 |
| WBVar02122684 |
| WBVar02121793 |
| WBVar02123140 |
| WBVar02124428 |
| WBVar02124831 |
| WBVar02122859 |
| gk962703 |
| WBVar01809481 |
| WBVar01809480 |
| WBVar00603111 |
| WBVar00603112 |
| WBVar01778393 |
| gk310676 |
| WBVar01778394 |
| WBVar01843239 |
| WBVar01843238 |
| WBVar01778387 |
| WBVar01778388 |
| WBVar01778385 |
1 Chromosome Location
|
Feature . Primary Identifier |
Start | End | Strand |
|---|---|---|---|
| WBGene00005801 | 16611335 | 16612703 | 1 |
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_chrV_16612704..16612791 | 88 | V: 16612704-16612791 | Caenorhabditis elegans |
7 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| adult vs dauer larva | Transcripts that showed differential expression in adult vs dauer lava in N2 animals at 20C. | N.A. | WBPaper00050488:adult_vs_dauer_regulated_N2_20C |
| mRNAs that showed decreased expression in 1 cell mebryo comparing to in oocyte, according to RNAseq analysis. | Gaussian error propagation. As cutoff for the up-regulated genes authors used log2 fold change > 1 and P < 0.05 and as cutoff for the down-regulated genes authors used log2 fold change < -1 and P < 0.05. | WBPaper00045420:fertilization_downregulated_transcript | |
| Bacteria infection: Photorhabdus luminescens | Genes down-regulated in animals infected with Photorhabdus luminescens compared to the E. coli OP50 control after 24h of infection. | MAANOVA and BRB-Array-Tools. | WBPaper00030985:Photorhabdus_luminescens_downregulated |
| Transcripts that showed differential expression in dauer mir-34(gk437) vs dauer mir-34(OverExpression) animals at 20C. | N.A. | WBPaper00050488:mir-34(gk437)_vs_mir-34(OverExpression)_regulated_dauer_20C | |
| Transcripts that showed differential expression in dauer N2 vs dauer mir-34(gk437) animals at 20C. | N.A. | WBPaper00050488:N2_vs_mir-34(gk437)_regulated_dauer_20C | |
| Coexpression clique No. 211, srj-42-srw-113, on the genome-wide coexpression clique map for the nematode GPL200 platform. | All available microarray datasets for the GPL200 platform (Affymetrix C. elegans Genome Array) were obtained from the GEO repository. This included 2243 individual microarray experiments. These were normalized against each other with the software RMAexpress (Bolstad, 2014). Based on these normalized values, Pearsons correlation coefficients were obtained for each probe-probe pair of the 22,620 probes represented on this array type. The resulting list of correlation coefficients was then ranked to generate the ranked coexpression database with information on each probe represented on the GPL200 platform. | WBPaper00061527:srj-42-srw-113 | |
| mRNAs that showed increased expression after 100ug\/L microcystin-LR exposure. | Differentially expressed genes (DEGs) were identified with a random-variance t-test and an SAM (Significance Analysis of Microarrays) test. Gene expression differences were considered statistically significant if their p-value was less than 0.05, the false discovery rate less than 0.3 and the fold-change compared to control at least <= 0.67 or >= 1.5. | WBPaper00045807:microcystin-LR_upregulated |
2 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr1024441 | Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/levin2012 | |||
| Expr1159313 | Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015 |
1 Upstream Intergenic Region
| WormBase ID | Name | Sequence Name | Length (nt) | Chromosome Location | Organism |
|---|---|---|---|---|---|
| intergenic_region_chrV_16610953..16611334 | 382 | V: 16610953-16611334 | Caenorhabditis elegans |
