WormMine: Gene WBGene00219219

• WormBase Gene ID: WBGene00219219
• Gene Name: mir-5546
• Sequence Name: Y71F9AL.22
• Organism: Caenorhabditis elegans
• Automated Description: Is affected by alg-5 and ogt-1 based on RNA-seq studies. Is affected by graphene oxide based on RNA-seq studies.
• Biotype: SO:0001265
• Genetic Position: I :-5.3051±
• Length (nt): 110

1 Organism

• Name: Caenorhabditis elegans
• Taxon Id: 6239

1 Synonyms

• Value: WBGene00219219

Genomics

2 Transcripts

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
Transcript:Y71F9AL.22b	Y71F9AL.22b	22	I: 2888470-2888491
Transcript:Y71F9AL.22a	Y71F9AL.22a	23	I: 2888512-2888534

Other

0 CDSs

3 RNAi Result

• WBRNAi00058163
• WBRNAi00033449
• WBRNAi00022837

4 Allele

• gk963902
• gk964159
• gk962616
• WBVar01556376

1 Chromosome

• WormBase ID: I
• Organism: Caenorhabditis elegans
• Length (nt): 15072434

1 Chromosome Location

• Feature . Primary Identifier: WBGene00219219
• Start: 2888448
• End: 2888557
• Strand: -1

2 Data Sets

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

0 Downstream Intergenic Region

7 Expression Clusters

Regulated By Treatment	Description	Algorithm	Primary Identifier
	Transcripts that showed significantly increased 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)_upregulated_neuron
	MicroRNAs that showed significantly decreased expression in alg-5(ram2), comparing to in N2.	DESeq2, Fold change > 1.5.	WBPaper00051404:alg-5(ram2)_downregulated_miRNA
	miRNA with decreased expression in N2 L1 larva comparing to in N2 embryo.	DEGseq and GFOLD were used to analyze miRNAs expression. Authors chose miRNAs which had more than two-fold difference in expression (P < 0.001, q < 0.01 of Storey) from DEGseq, and miRNAs which had more than two-fold difference in expression (GFOLD score > 0 for up-regulation and GFOLD score < 0 for down-regulation) from GFOLD outcomes. Then authors obtained the intersection of up-regulated miRNAs and down-regulated miRNAs for each stage from the chosen miRNAs, respectively.	WBPaper00045316:miRNA_N2_L1_vs_embryo_downregulated_adult
	MicroRNAs that showed significantly decreased expression in alg-5(tm1163), comparing to in N2.	DESeq2, Fold change > 1.5.	WBPaper00051404:alg-5(tm1163)_downregulated_miRNA
	miRNA with decreased expression in prg-1(wm161) L1 larva comparing to in prg-1(wm161) embryo.	DEGseq and GFOLD were used to analyze miRNAs expression. Authors chose miRNAs which had more than two-fold difference in expression (P < 0.001, q < 0.01 of Storey) from DEGseq, and miRNAs which had more than two-fold difference in expression (GFOLD score > 0 for up-regulation and GFOLD score < 0 for down-regulation) from GFOLD outcomes. Then authors obtained the intersection of up-regulated miRNAs and down-regulated miRNAs for each stage from the chosen miRNAs, respectively.	WBPaper00045316:miRNA_prg-1_L1_vs_embryo_downregulated_adult
	MicroRNAs that showed significantly increased expression in alg-5(tm1163), comparing to in N2.	DESeq2, Fold change > 1.5.	WBPaper00051404:alg-5(tm1163)_upregulated_miRNA
	miRNAs that showed decreased expression after exposure to graphene oxide (GO)	The dysregulated expression of miRNAs in GO-exposed nematodes was analyzed by DESeq (an R package, a powerful tool to estimate the variance and test for differential expression). The data were extracted as up- or down-regulated miRNAs according to a cutoff of 2 fold change, and were presented in the scatter diagram after normalization.	WBPaper00045209:graphene-oxide_downregulated

0 Expression Patterns

0 GO Annotation

0 Homologues

1 Locations

• Feature . Primary Identifier: WBGene00219219
• Start: 2888448
• End: 2888557
• Strand: -1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

• Length: 110

1 Sequence Ontology Term