WormMine

WS294

Intermine data mining platform for C. elegans and related nematodes

Gene :

WormBase Gene ID  ? WBGene00110596 Gene Name  Ppa-crn-3
Sequence Name  ? PPA21042 Organism  Pristionchus pacificus
Automated Description  Predicted to enable 3'-5' exonuclease activity; nucleic acid binding activity; and nucleotide binding activity. Predicted to be involved in RNA processing. Predicted to be part of nuclear exosome (RNase complex). Is an ortholog of C. elegans crn-3. In C. elegans, crn-3 is involved in apoptotic DNA fragmentation and apoptotic cell clearance. Biotype  SO:0001217
Genetic Position  :±
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1 Organism

Name Taxon Id
Pristionchus pacificus 54126

0 Synonyms

Genomics

1 Transcripts

WormMine ID Sequence Name Length (nt) Chromosome Location
Transcript:PPA21042.1 PPA21042.1   [unknown]
 

Other

1 CDSs

WormMine ID Sequence Name Length (nt) Chromosome Location
CDS:PPA21042 PPA21042   [unknown]

0 RNAi Result

0 Allele

0 Chromosome

0 Chromosome Location

2 Data Sets

Name URL
WormBaseAcedbConverter  
GO Annotation data set  

0 Downstream Intergenic Region

2 Expression Clusters

Regulated By Treatment Description Algorithm Primary Identifier
Germline ablation Genes that showed differential expression in the comparision of germline-ablated animals fed on E. coli OP50 versus un-ablated animals fed E. coli OP50. Differential expression was calculated by empirical Bayes method using the eBayes function, and control of FDR was employed as the multiple testing correction. Authors used cutoff of absolute log2 fold change greater than or equal to 1.5 AND p_value less than or equal to 0.05 to call differentially expressed genes. WBPaper00041466:PP_germline-ablation_regulated
  Germline expressed genes in P.pacificus are also significantly enriched in the annotated\/validated operons conserved across P.pacificus and C.elegans. Differential expression was calculated by empirical Bayes method using the eBayes function, and control of FDR was employed as the multiple testing correction. Authors used cutoff of absolute log2 fold change greater than or equal to 1.5 AND p_value less than or equal to 0.05 to call differentially expressed genes. WBPaper00045473:PP_Germline_Conserved_Operon

0 Expression Patterns

7 GO Annotation

Annotation Extension Qualifier
  involved_in
  part_of
  enables
  enables
  enables
  involved_in
  involved_in

0 Homologues

0 Locations

7 Ontology Annotations

Annotation Extension Qualifier
  involved_in
  part_of
  enables
  enables
  enables
  involved_in
  involved_in

0 Regulates Expr Cluster

0 Sequence

1 Sequence Ontology Term