WormMine: Gene WBGene00236789

• WormBase Gene ID: WBGene00236789
• Gene Name: Y18H1A.18
• Sequence Name: Y18H1A.18
• Organism: Caenorhabditis elegans
• Automated Description: Enriched in GLR and neurons based on single-cell RNA-seq and RNA-seq studies. Is affected by several genes including etr-1; mrps-5; and spc-1 based on RNA-seq studies.
• Biotype: SO:0001217
• Genetic Position: :±
• Length (nt): 1085

1 Organism

• Name: Caenorhabditis elegans
• Taxon Id: 6239

1 Synonyms

• Value: WBGene00236789

Genomics

1 Transcripts

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
Transcript:Y18H1A.18.1	Y18H1A.18.1	367	I: 740801-741885

Other

1 CDSs

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
CDS:Y18H1A.18	Y18H1A.18	210	I: 740933-741007

1 RNAi Result

• WBRNAi00004556

19 Allele

• gk963902
• gk963701
• WBVar02122988
• WBVar01711464
• gk781118
• gk641621
• gk887567
• gk833724
• gk745174
• gk892537
• gk818396
• WBVar01992800
• WBVar00004271
• WBVar00004266
• WBVar01640151
• WBVar01680792
• WBVar01680791
• WBVar02005973
• WBVar01529870

1 Chromosome

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

1 Chromosome Location

• Feature . Primary Identifier: WBGene00236789
• Start: 740801
• End: 741885
• Strand: 1

2 Data Sets

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

0 Downstream Intergenic Region

27 Expression Clusters

Regulated By Treatment	Description	Algorithm	Primary Identifier
	Transcripts of coding genes that showed significantly decreased 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_depleted_coding-RNA
	Neuronally enriched transcripts according to a comparison of neuronal nuclei IP samples to total nuclei using isolation of nuclei from tagged specific cell types (INTACT) technology.	DESEQ2, fold change > 2 and FDR < 0.01.	WBPaper00062103:neuron_enriched
	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
	Genome-wide analysis of developmental and sex-regulated gene expression profile.	self-organizing map	cgc4489_group_8
	Transcripts that showed significantly increased expression in mrps-5(RNAi) animals comparing to animals injected with empty vector.	Differential expression was assessed using a Partial least-squares discriminant analysis (PLS-DA) using mixomics setting a variable of importance (VIP) score of greater than 1 as significant.	WBPaper00059328:mrps-5(RNAi)_upregulated_mRNA
	Single-cell RNA-Seq cell group 32_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:32_0
	Transcripts that showed significantly decreased expression in nfki-1(cer1) animals at L4 larva stage, comparing to in N2 animals.	Differentially expressed genes between wild type and knockouts were explored using DESeq2 R package (v.1.20.0) considering a threshold of adjusted p value < 0.01.	WBPaper00060445:nfki-1(cer1)_downregulated_L4
	Single-cell RNA-Seq cell group 52_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:52_0
	Transcripts that showed significantly decreased expression in spc-1(cas971) comparing to in N2 at L1 larva stage.	DESeq2, fold change >= 2, FDR <= 0.05	WBPaper00057041:spc-1(cas971)_downregulated
	Single-cell RNA-Seq cell group 111_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:111_0
	Single-cell RNA-Seq cell group 115_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:115_0
	Top 300 transcripts enriched in RICL, RICR according to single cell RNAseq.	Top 300 enriched transcripts were determined by log2.ratio of the tpm in the cell type vs the tpm in the other cells * the log2 of the cell.type tpm.	WBPaper00061340:RIC
	Top 300 transcripts enriched in AVKL, AVKR according to single cell RNAseq.	Top 300 enriched transcripts were determined by log2.ratio of the tpm in the cell type vs the tpm in the other cells * the log2 of the cell.type tpm.	WBPaper00061340:AVK
	Transcripts that showed significantly decreased expression in adr-1(tm668) comparing to in N2.	DESeq2, p-value < 0.05 and a fold enrichment log2fold > 0.5.	WBPaper00055226:adr-1(tm668)_downregulated
	Single-cell RNA-Seq cell group 6_1 expressed in neuron.	scVI 0.6.0	WBPaper00065841:6_1
	Single-cell RNA-Seq cell group 73_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:73_0
	Single-cell RNA-Seq cell group 140_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:140_0
	Single-cell RNA-Seq cell group 94_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:94_0
	Single-cell RNA-Seq cell group 48_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:48_0
	Single-cell RNA-Seq cell group 62_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:62_0
	Single-cell RNA-Seq cell group 98_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:98_0
	Single-cell RNA-Seq cell group 103_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:103_0
	Single-cell RNA-Seq cell group 6_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:6_0
	Transcripts enriched in VB4_9 according to single cell RNAseq.	Genes that pass the Bonferroni threshold for multiple comparisons (q < 0.05) are significantly enriched.	WBPaper00066550:VB4_9_enriched
	Single-cell RNA-Seq cell group 49_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:49_0
	Single-cell RNA-Seq cell group 119_0 expressed in mesoderm.	scVI 0.6.0	WBPaper00065841:119_0
	Single-cell RNA-Seq cell group 129_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:129_0

2 Expression Patterns

• Primary Identifier: Expr2025364
• 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).

• Primary Identifier: Expr2007135
• 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: WBGene00236789
• Start: 740801
• End: 741885
• Strand: 1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

• Length: 1085

1 Sequence Ontology Term