WormMine: Gene WBGene00255597

• WormBase Gene ID: WBGene00255597
• Gene Name: pals-21
• Sequence Name: Y82E9BR.32
• Organism: Caenorhabditis elegans
• Automated Description: Is affected by several genes including etr-1; pri-1; and ints-4 based on RNA-seq studies. Is affected by five chemicals including rifampin; allantoin; and bortezomib based on RNA-seq and microarray studies.
• Biotype: SO:0001217
• Genetic Position: III :-21.9212±
• Length (nt): 1496

1 Organism

• Name: Caenorhabditis elegans
• Taxon Id: 6239

1 Synonyms

• Value: WBGene00255597

Genomics

1 Transcripts

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
Transcript:Y82E9BR.32.1	Y82E9BR.32.1	546	III: 1379140-1380635

Other

1 CDSs

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
CDS:Y82E9BR.32	Y82E9BR.32	546	III: 1379140-1379370

0 RNAi Result

141 Allele

• WBVar02122936
• WBVar02124345
• gk963623
• WBVar02120838
• WBVar02121867
• gk962532
• WBVar02121745
• gk964281
• WBVar02120478
• gk964019
• gk964018
• WBVar02124403
• WBVar02121976
• WBVar02122455
• WBVar02120666
• WBVar02124471
• WBVar02121406
• tm11211
• WBVar00091208
• WBVar02123379
• WBVar02121165
• otn10994
• WBVar01324455
• WBVar01540659
• WBVar01540660
• WBVar01540661
• gk963625
• gk927031
• gk507890
• gk711703

1 Chromosome

• WormBase ID: III
• Organism: Caenorhabditis elegans
• Length (nt): 13783801

1 Chromosome Location

• Feature . Primary Identifier: WBGene00255597
• Start: 1379140
• End: 1380635
• Strand: -1

2 Data Sets

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

1 Downstream Intergenic Region

• WormBase ID: intergenic_region_chrIII_1378004..1379139
• Length (nt): 1136
• Chromosome Location: III: 1378004-1379139
• Organism: Caenorhabditis elegans

22 Expression Clusters

Regulated By Treatment	Description	Algorithm	Primary Identifier
	Transcripts that showed significantly increased expression after animals were treated with 50uM Rifampicin and 250uM Allantoin from day 1 to day 3 adult hermaphradite.	DESeq2(v1.14.1), fold change > 2, p-value < 0.05	WBPaper00055354:Rifampicin-Allantoin_upregulated
	Transcripts that showed significantly increased expression in pri-1(RNAi) animals comparing to in N2 animals fed with empty vector.	Differential expression analysis was performed quasi-likelihood F-test with the generalized linear model (GLM) approach in edgeR ver 3.32.1. FDR < 0.05, fold change > 2.	WBPaper00066418:pri-1(RNAi)_upregulated
	Transcripts that showed significantly increased expression after animals were treated with 50uM Rifampicin from day 1 to day 3 adult hermaphradite.	DESeq2(v1.14.1), fold change > 2, p-value < 0.05	WBPaper00055354:Rifampicin_upregulated
	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
Fungi infection: Haptoglossa zoospora.	Transcripts that showed significantly altered expression after L4 N2 animals were exposed to omycete Haptoglossa zoospora for 6 hours.	Kalisto abundance files were converted and analysed using Sleuth in a R pipeline. Standard Sleuth protocols were used to calculate differential expression. P value < 0.01 and FDR < 0.01.	WBPaper00062354:H.zoospora_6h_regulated
	Transcripts of coding genes that showed significantly increased expression in muscle.	DESeq2 (version 1.24.0). Transcripts with a false-discovery rate adjusted p-value less than 0.05 were considered significantly differentially expressed.	WBPaper00062325:muscle_enriched_coding-RNA
Bacteria infection: N.ausubeli	Transcripts that showed significantly altered expression in C. elegans wild isolate strain JU1400 infected by N.ausubeli microsporidia spores for 72 hours at 21C starting from L1 larva stage.	FDR < 0.01	WBPaper00065086:JU1400_N.ausubeli_regulated
	Transcripts that showed significantly increased expression in animals exposed to Leptomycin B for 3 hours at 2C.	p < 0.01, logFC > 1 or p < 0.01, logFC < -1.	WBPaper00066610:Leptomycin-B_upregulated_2C_3h
	Transcripts that showed significantly decreased expression in ogt-1(ok1474) neuronal cells isolated by FACs comparing to in FACs isolated neuronal cells from wild type.	DESeq2, fold change > 2, FDR < 0.05.	WBPaper00066485:ogt-1(ok1474)_downregulated_neuron
	Transcripts that showed significantly increased expression in ints-4(RNAi) comparing to in N2.	DESeq2 and edgeR.	WBPaper00056284:ints-4(RNAi)_upregulated
	transcripts that showed significantly increased expression after N2 animals were exposed to 20 uM bortezomib for 4 hours.	Differential expression analyses were performed using limma-voom in Galaxy. Fold change > 2, FDR < 0.05.	WBPaper00062345:bortezomib_4h_upregulated_N2
	Transcripts that showed significantly decreased expression after 24 hours of induction of human beta Amyloid at young adult stage	A 2-fold change in expression level and a false discovery rate analog of p < 0.05.	WBPaper00064130:Beta-Amyloid_24h_downregulated_mRNA
Bacteria infection: N.ausubeli	Transcripts that showed significantly altered expression in C. elegans wild isolate strain N2 infected by N.ausubeli microsporidia spores for 72 hours at 21C starting from L1 larva stage.	FDR < 0.01	WBPaper00065086:N2_N.ausubeli_regulated
	transcripts that showed significantly increased expression after zip-1(jy13) animals were exposed to 20 uM bortezomib for 4 hours.	Differential expression analyses were performed using limma-voom in Galaxy. Fold change > 2, FDR < 0.05.	WBPaper00062345:bortezomib_4h_upregulated_zip-1(jy13)
Bacteria Diet: L. plantarum with pdxH mutant vs. L. plantarum	Transcripts that showed significantly increased expression in N2 animals fed with L. plantarum with pdxH mutant, comparing to in N2 animals fed with L. plantarum.	GFold3, logFC < -1 or > 1.	WBPaper00066703:L.plantarum-pdxH_upregulated
	Genes that showed significant differential expressed between control and 1000 mg\/L Fluoranthene treatment.	t-test, p < 0.05.	WBPaper00036123:Fluoranthene_regulated
Bacteria infection: N.ferruginous	Transcripts that showed significantly altered expression in C. elegans wild isolate strain JU1400 infected by N.ferruginous microsporidia spores for 72 hours at 21C starting from L1 larva stage.	FDR < 0.01	WBPaper00065086:JU1400_N.ferruginous_regulated
Bacteria infection: N.ironsii	Transcripts that showed significantly altered expression in C. elegans wild isolate strain JU1400 infected by N.ironsii microsporidia spores for 72 hours at 21C starting from L1 larva stage.	FDR < 0.01	WBPaper00065086:JU1400_N.ironsii_regulated
Bacteria infection: N.ironsii	Transcripts that showed significantly altered expression in C. elegans wild isolate strain N2 infected by N.ironsii microsporidia spores for 72 hours at 21C starting from L1 larva stage.	FDR < 0.01	WBPaper00065086:N2_N.ironsii_regulated
Bacteria infection: N.parisii	Transcripts that showed significantly altered expression in C. elegans wild isolate strain JU1400 infected by N.parisii microsporidia spores for 72 hours at 21C starting from L1 larva stage.	FDR < 0.01	WBPaper00065086:JU1400_N.parisii_regulated
Bacteria infection: N.ferruginous	Transcripts that showed significantly altered expression in C. elegans wild isolate strain N2 infected by N.ferruginous microsporidia spores for 72 hours at 21C starting from L1 larva stage.	FDR < 0.01	WBPaper00065086:N2_N.ferruginous_regulated
Bacteria infection: N.parisii	Transcripts that showed significantly altered expression in C. elegans wild isolate strain N2 infected by N.parisii microsporidia spores for 72 hours at 21C starting from L1 larva stage.	FDR < 0.01	WBPaper00065086:N2_N.parisii_regulated

1 Expression Patterns

• Primary Identifier: Expr2032929
• Pattern: Single cell embryonic expression. Only cell types with an expression fraction of greater 0.2 of the maximum expressed fraction are labeled (Full data can be downloaded from http://caltech.wormbase.org/pub/wormbase/datasets-published/packer2019/). The colors represent the broad cell class to which the cell type has been assigned. The size of the point is proportional to the log2 of the numbers of cells in the dataset of that cell type. Interactive visualizations are available as a web app (https://cello.shinyapps.io/celegans/) and can also be installed as an R package (https://github.com/qinzhu/VisCello.celegans).

0 GO Annotation

0 Homologues

1 Locations

• Feature . Primary Identifier: WBGene00255597
• Start: 1379140
• End: 1380635
• Strand: -1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

• Length: 1496

1 Sequence Ontology Term