WormMine: Gene WBGene00045141

• WormBase Gene ID: WBGene00045141
• Gene Name: Y53F4B.47
• Sequence Name: Y53F4B.47
• Organism: Caenorhabditis elegans
• Automated Description: Is affected by several genes including rsr-2; hmg-3; and ilc-17.1 based on RNA-seq studies.
• Biotype: SO:0001267
• Genetic Position: :±
• Length (nt): 80

1 Organism

• Name: Caenorhabditis elegans
• Taxon Id: 6239

1 Synonyms

• Value: WBGene00045141

Genomics

1 Transcripts

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
Transcript:Y53F4B.47	Y53F4B.47	80	II: 15025814-15025893

Other

0 CDSs

0 RNAi Result

6 Allele

• gk963801
• gk963053
• WBVar01321662
• gk962684
• gk963297
• WBVar01254113

1 Chromosome

• WormBase ID: II
• Organism: Caenorhabditis elegans
• Length (nt): 15279421

1 Chromosome Location

• Feature . Primary Identifier: WBGene00045141
• Start: 15025814
• End: 15025893
• Strand: -1

2 Data Sets

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

1 Downstream Intergenic Region

• WormBase ID: intergenic_region_chrII_15025783..15025813
• Length (nt): 31
• Chromosome Location: II: 15025783-15025813
• Organism: Caenorhabditis elegans

13 Expression Clusters

Regulated By Treatment	Description	Algorithm	Primary Identifier
	Transcripts depleted in purified oocyte P bodies comparing to in whole oocytes.	DESeq2, FDR < 0.05, fold change > 2.	WBPaper00065975:P-body_vs_oocyte_depleted
	Transcripts depleted in purified oocyte P bodies comparing to in the whole animal.	DESeq2, FDR < 0.05, fold change > 2.	WBPaper00065975:P-body_vs_WholeAnimal_depleted
	Transcripts that showed significantly increased expression in ilc-17.1(syb5296) comparing to in N2 animals at L4 larva stage.	DESeq2, fold change > 2, FDR < 0.05.	WBPaper00066594:ilc-17.1(syb5296)_upregulated
	Transcripts that showed significantly increased expression in set-2(tm1630) animals at embryo stage, comparing to in N2 animals.	DESeq2 (v2.1.8.3) was used to determine DE genes and to generate principal component and scatter plots. DE genes with FDR < 0.05 were analysed using g:Profiler with Bonferroni correction.	WBPaper00060014:set-2(tm1630)_upregulated
Bacteria infection: Pseudomonas aeruginosa PA14. 24 hours of exposure.	Small RNAs (21-26nt) that showed significantly increased expression after L4 animals were exposed to P .aeruginosa strain PA14 for 24 hours.	DESeq2, FDR < 0.05	WBPaper00056868:P.aeruginosa_upregulated_smallRNA
	mRNAs that showed significantly decreased expression in polysomal fractions in daf-2(e1370) comparing to in daf-2(e1370);daf-16(mu86), according to RNAseq study.	Differentially expressed genes were determined using cuffdiff across all pairs.	WBPaper00046337:polysomal_daf-2_vs_daf-2;daf-16_downregulated
	mRNAs that showed significantly decreased expression in polysomal fractions in N2 comparing to in daf-2(e1370), according to RNAseq study.	Differentially expressed genes were determined using cuffdiff across all pairs.	WBPaper00046337:polysomal_N2_vs_daf-2_downregulated
	Targets of endo-siRNA that showed significantly increased expression in BFF40[meg-3(tm4259);meg-4(ax2026);mex-5::gfp::h2b::tbb-2] comparing to in SX1263[Pmex-5::gfp::h2b::tbb-2 (mjIs134 II)] dissected gonad isolated from 1-day old adult hermaphrodites.	DESeq2, fold change > 2, FDR < 0.01	WBPaper00057140:meg-3(tm4259)_meg-4(ax2026)_upregulated
	Promoters regions that bind with NHR-86 according to ChIP-Seq using NHR-86-GFP protein.	N.A.	WBPaper00056073:NHR-86_interacting_promoter
	mRNAs that showed significantly decreased expression in monosomal fractions in N2 comparing to in daf-2(e1370), according to RNAseq study.	Differentially expressed genes were determined using cuffdiff across all pairs.	WBPaper00046337:monosomal_N2_vs_daf-2_downregulated
	Genes that showed significantly increased expression level in rsr-2(RNAi) animals comparing to in gfp(RNAi) control, according to RNAseq analysis.	This analysis uses Cufflinks-Cuffdiff to quantify and identify transcripts with a significant level of expression between different conditions.	WBPaper00042477:rsr-2(RNAi)_upregulated_RNAseq
	ncRNAs with significantly increased expression in cep-1(gk138) than in N2 after UV irradiation, according to RNAseq.	ncRNAs with more than 2 fold difference in expression are considered differentially expressed	WBPaper00045380:cep-1(gk138)_upregulated_UV
	Transcripts that interact with HMG-3-HA in BAT1753 [hmg-3(bar24[hmg-3-3xHA]) I] at L4 larva stage.	N.A.	WBPaper00055013:HMG-3_interacting_transcript

0 Expression Patterns

0 GO Annotation

0 Homologues

1 Locations

• Feature . Primary Identifier: WBGene00045141
• Start: 15025814
• End: 15025893
• Strand: -1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

• Length: 80

1 Sequence Ontology Term