WormMine: Gene WBGene00021574

• WormBase Gene ID: WBGene00021574
• Gene Name: Y45G12C.11
• Sequence Name: Y45G12C.11
• Organism: Caenorhabditis elegans
• Automated Description: Is affected by several genes including cyc-1; pmt-2; and glh-4 based on microarray and RNA-seq studies.
• Biotype: SO:0000336
• Genetic Position: :±
• Length (nt): 5849

1 Organism

• Name: Caenorhabditis elegans
• Taxon Id: 6239

1 Synonyms

• Value: WBGene00021574

Genomics

0 Transcripts

Other

0 CDSs

0 RNAi Result

10 Allele

• gk963301
• gk963591
• gk963553
• gk964259
• gk963850
• gk963027
• gk962689
• gk962688
• gk963769
• h17993

1 Chromosome

• WormBase ID: V
• Organism: Caenorhabditis elegans
• Length (nt): 20924180

1 Chromosome Location

• Feature . Primary Identifier: WBGene00021574
• Start: 2548569
• End: 2554417
• Strand: -1

2 Data Sets

• WormBaseAcedbConverter
• C. elegans genomic annotations (GFF3 Gene)

1 Downstream Intergenic Region

• WormBase ID: intergenic_region_chrV_2548151..2548568
• Length (nt): 418
• Chromosome Location: V: 2548151-2548568
• Organism: Caenorhabditis elegans

14 Expression Clusters

Regulated By Treatment	Description	Algorithm	Primary Identifier
	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
	Transcripts that showed significantly decreased expression in eat-2(ad1116) comparing to in N2 at 3-days post L4 adult hermaphrodite animals.	DESeq2(v1.14.1), fold change > 2, p-value < 0.05	WBPaper00055354:eat-2(ad1116)_downregulated
	Transcripts that showed significantly increased 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:upregulated_P-granule(-)GFP(-)_vs_control_day2-adult
	Genes found to be regulated by low-copy overexpression of sir-2.1 with p < 0.014.	N.A.	WBPaper00026929:sir-2.1_overexpression_regulated
	Transcripts that showed significantly decreased expression in pals-22(jy3) comparing to in N2 animals.	limma-voom, fold change > 2, FDR < 0.05	WBPaper00064532:pals-22(jy3)_downregulated
	Significantly downregulated genes from cyc-1(RNAi) microarrays using SAM algorithm with an FDR < 0.1 from adult-only chips.	SAM algorithm with an FDR < 0.1.	WBPaper00033065:cyc-1(RNAi)_downregulated
	Transcripts that showed altered expression in cat-2(RNAi) animals comparing to control animals injected with empty vector.	p-value <= 0.05	WBPaper00066902:cat-2(RNAi)_regulated
	Genes in the bottom 10% of expression level across the triplicate L3 samples. To generate the top10 and bottom10 gene sets, authors ranked all genes by mean expression array signal intensity across the three replicates, then took the top and bottom deciles (1,841 genes each) to represent genes with high and low expression.	To generate the top10 and bottom10 gene sets, authors ranked all genes by mean expression array signal intensity across the three replicates, then took the top and bottom deciles (1,841 genes each) to represent genes with high and low expression.	WBPaper00032528:L3_depleted
Fungi infection: Fusarium oxysporum	Transcripts that showed significantly altered expression after infected by fungi Fusarium oxysporum from 0 t0 48 hours.	The Benjamini and Hochberg approach was used to adjust the resulting P-values for controlling the false-discovery rate. The transcripts having a false-discovery rate of < 0.05 were considered as differentially expressed.	WBPaper00053368:F.oxysporum_regulated
	Transcripts that showed significantly increased expression in DA116[eat-2(ad1116)] comparing to in N2.	The DESeq2 package (v1.24.0) was used to identify differentially expressed genes (DEGs). Fold change > 2, FDR < 0.05.	WBPaper00061040:eat-2(ad1116)_upregulated
	Transcripts that showed significantly decreased expression in pmt-2(RNAi) animals comparing to control animals iinjected with empty vector.	Fold-change > 1.5, ANOVA P values < 0.05.	WBPaper00055482:pmt-2(RNAi)_downregulated
	Transcripts that showed significantly increased expression in animals with pan-neuronal expression of human alpha-Synuclein(A53T) (aex-3p-alpha-syn (A53T)), comparing to in N2 animals.	edgeR p-value < 0.01 and fold change > 4.	WBPaper00061613:human-alpha-Synuclein(A53T)_upregulated
	Genes differentially expressed in pgrn-1(tm985) and ced-3(n717) but not in ced-1(e1735) as compared to N2E.	Differential expression analysis was performed using the EdgeR Bioconductor package (19910308), and differentially expressed genes were selected based on False Discovery Rate (FDR Benjamini Hochberg adjusted p-values) estimated at <=5%.	WBPaper00044246:pgrn-1_ced-3_downregulated
	Transcripts that showed significantly increased expression in adr-2(ok735) and adr-2(gv42) comparing to in N2 at L4 larva stage.	DESeq FDR <= 0.05	WBPaper00056617:adr-2_upregulated_L4_transcript

1 Expression Patterns

• Primary Identifier: Expr1160088
• Pattern: Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015

0 GO Annotation

0 Homologues

1 Locations

• Feature . Primary Identifier: WBGene00021574
• Start: 2548569
• End: 2554417
• Strand: -1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

• Length: 5849

1 Sequence Ontology Term