Genomics
3 Transcripts
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| Transcript:F26F2.11b.1 | F26F2.11b.1 |
213
 |
V: 20595415-20595753 |
| Transcript:F26F2.11c.1 | F26F2.11c.1 |
108
|
V: 20595426-20595599 |
| Transcript:F26F2.11a.1 | F26F2.11a.1 |
167
|
V: 20595426-20595753 |
Other
3 CDSs
| WormMine ID | Sequence Name | Length (nt) | Chromosome Location |
|---|---|---|---|
| CDS:F26F2.11c | F26F2.11c |
108
|
V: 20595426-20595490 |
| CDS:F26F2.11b | F26F2.11b |
114
|
V: 20595557-20595591 |
| CDS:F26F2.11a | F26F2.11a |
144
|
V: 20595426-20595490 |
26 Allele
| Public Name |
|---|
| gk963271 |
| WBVar02124844 |
| gk964176 |
| gk962705 |
| gk963489 |
| gk963304 |
| WBVar02122714 |
| WBVar02124642 |
| gk963809 |
| WBVar01755860 |
| WBVar02121339 |
| WBVar02124290 |
| WBVar01599519 |
| gk594681 |
| gk875772 |
| WBVar00073475 |
| WBVar00073474 |
| WBVar00073477 |
| WBVar00073476 |
| WBVar00073479 |
| WBVar01599516 |
| WBVar00073478 |
| WBVar01599517 |
| WBVar01599518 |
| WBVar01978698 |
| WBVar00603289 |
1 Chromosome Location
|
Feature . Primary Identifier |
Start | End | Strand |
|---|---|---|---|
| WBGene00195158 | 20595415 | 20595753 | -1 |
1 Downstream Intergenic Region
| WormBase ID | Name | Sequence Name | Length (nt) | Chromosome Location | Organism |
|---|---|---|---|---|---|
| intergenic_region_chrV_20594847..20595414 | 568 | V: 20594847-20595414 | Caenorhabditis elegans |
11 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| 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 | |
| siRNAs that showed significantly lower expression (log2fold > 2, padj < 0.01) in hermaphrodite gonad (somatic gonad plus germine) than in male gonad (somatic gonad plus germine). | DESeq2 v1.13.8, fold change > 2, FDR < 0.01. | WBPaper00056161:male_enriched_siRNA | |
| Bacteria: B.subtilis | Transcripts that showed significantly increased expression when animals were fed by probiotic bacteria strain B.subtilis PXN21 comparing to animals fed with OP50 from L1 till day 1 adult. | edgeR 3.16.5, FDR < 0.05, fold change > 2. | WBPaper00059117:B.subtilis_upregulated |
| Transcripts that showed significantly increased expression in mip-1(how5) comparing to in control animals. | DESeq2, fold change > 2. | WBPaper00066038:mip-1(how5)_upregulated | |
| Genes that were enriched in spermatogenic fem-3(q96gf) gonads comparing to in oogenic fog-2(q71), according to RNAseq analysis. | To identify differentially expressed transcripts, authors used R/Bioconductor package DESeq. | WBPaper00045521:Spermatogenic | |
| Bacteria diet: Chryseobacterium sp. CHNTR56 MYb120 | Transcripts that showed significantly increased expression after animals were fed by Chryseobacterium sp. CHNTR56 MYb120, comparing to animals fed by OP50. | edgeR FDR <= 0.05, fold change >= 4. | WBPaper00061424:Diet_MYb120_upregulated |
| Transcripts that showed significantly decreased expression in swsn-1(os22ts) comparing to in N2 animals at young adult worms. | DESeq2, FDR<0.05 and fold-change 2. (Threshold set by WormBase curator.) | WBPaper00060764:swsn-1(os22ts)_downregulated | |
| Transcripts that showed significantly decreased expression in ifo-1(kc2) comparing to in N2 animals. | ANOVA, p-value < 0.05. | WBPaper00056167:ifo-1(kc2)_downregulated | |
| Bacteria infection: Vibrio cholerae A1552, 8 hours at L4 larva stage. | Transcripts that showed significantly increased expression in N2 animals infected by bacteria strain Vibrio cholerae A1552. | DESeq2 v1.36.0, fold change > 2, FDR < 0.05. | WBPaper00067803:V.cholerae_upregulated_N2 |
| 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 | |
| Transcripts that showed more than 4 fold of expression in CB4856 comparing to in N2 animals. | DESeq2, fold change > 4. | WBPaper00053909:N2_vs_CB4856_downregulated |
1 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr1149571 | 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_20595754..20596008 | 255 | V: 20595754-20596008 | Caenorhabditis elegans |
