WormMine: Gene WBGene00219720

• WormBase Gene ID: WBGene00219720
• Gene Name: linc-2
• Sequence Name: R144.17
• Organism: Caenorhabditis elegans
• Automated Description: Enriched in AFD and head mesodermal cell based on RNA-seq studies. Is affected by several genes including cua-1; etr-1; and spr-1 based on RNA-seq studies. Is affected by Tunicamycin based on RNA-seq studies.
• Biotype: SO:0001641
• Genetic Position: III :-2.21468±
• Length (nt): 127

1 Organism

• Name: Caenorhabditis elegans
• Taxon Id: 6239

1 Synonyms

• Value: WBGene00219720

Genomics

1 Transcripts

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
Transcript:R144.17	R144.17	127	III: 5024881-5025007

Other

0 CDSs

0 RNAi Result

7 Allele

• gk964504
• gk964503
• WBVar01408558
• WBVar01644445
• gk331362
• gk823294
• WBVar01995128

1 Chromosome

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

1 Chromosome Location

• Feature . Primary Identifier: WBGene00219720
• Start: 5024881
• End: 5025007
• Strand: 1

2 Data Sets

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

0 Downstream Intergenic Region

16 Expression Clusters

Regulated By Treatment	Description	Algorithm	Primary Identifier
	Transcripts that showed significantly increased expression in sin-3(tm1276) comparing to in N2.	DESeq2, fold change > 2, p-value < 0.01.	WBPaper00061203:sin-3(tm1276)_upregulated
	Transcripts that showed signifcantly increased expression in pabp-2(RNAi) animals comparing to in N2 animals injected with empty vector at L1 larva stage and collected at L4 larva stage.	FDR < 0.05, fold change > 2	WBPaper00067368:pabp-2(RNAi)_upregulated_N2
	Transcripts that showed significantly decreased expression in sin-3(tm1276) comparing to in N2 at early embryo when there were only 3 -5 eggs in the adult.	DESeq2, fold change > 2, adjusted p-value < 0.01	WBPaper00058598:sin-3(tm1276)_downregulated
	Transcripts that showed significantly decreased expression in dissected female germline comparing to in dissected male germline.	Log2 Fold change > 2 or <-1, p-value < 0.05.	WBPaper00053599:female_vs_male_downregulated
	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(zr2012) 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(zr2012)_upregulated
	Transcripts that showed significantly increased expression in spr-1(ok2144) comparing to in N2.	DESeq2, fold change > 2, p-value < 0.01.	WBPaper00061203:spr-1(ok2144)_upregulated
	Transcripts that showed significantly lower expression in somatic gonad precursor cells (SGP) vs. head mesodermal cells (hmc).	DESeq2, fold change >= 2, FDR <= 0.01.	WBPaper00056826:hmc_biased
Temperature Shift: 25C vs 15C for 16 hours at L4 larva stage.	Transcripts that showed significantly increased expression in AFD neurons comparing to in whole animals.	DESeq2, fold change > 2, FDR < 0.05.	WBPaper00065158:AFD_enriched
	Transcripts that showed significantly increased expression in let-418(n3536) comparing to in N2.	DESeq2, fold change > 2, p-value < 0.01.	WBPaper00061203:let-418(n3536)_upregulated
	Transcripts that showed signifcantly decreased expression in ubr-5(miy31);pabp-2(RNAi) comparing to in pabp-2(RNAi) animals.	FDR < 0.05, fold change > 2	WBPaper00067368:ubr-5(miy31)_downregulated_pabp-2(RNAi)
	Transcripts of noncoding 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_noncoding-RNA
	Transcripts that showed significantly decreased expression in adr-1(tm668) comparing to in N2 at L4 larva stage.	DESeq2, fold change > 2, FDR < 0.05.	WBPaper00066511:adr-1(tm668)_downregulated
	Transcripts that showed significantly decreased expression in cua-1(knu790) comparing to in N2.	FDR < 0.05 and fold change > 2.	WBPaper00066160:cua-1(knu790)_downregulated
	ncRNAs with significantly increased expression in cep-1(gk138) than in N2 under normal conditions, according to RNAseq.	ncRNAs with more than 2 fold difference in expression are considered differentially expressed	WBPaper00045380:cep-1(gk138)_upregulated_normal
	Transcripts that showed significantly increased expression after 4 hours of treatment by 50 ub per ml tunicamycin at L4 larva stage in wild type animals.	Fold change > 1.75	WBPaper00045971:tunicamycin_upregulated_control

0 Expression Patterns

0 GO Annotation

0 Homologues

1 Locations

• Feature . Primary Identifier: WBGene00219720
• Start: 5024881
• End: 5025007
• Strand: 1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

• Length: 127

1 Sequence Ontology Term