WormMine: Gene WBGene00206365

• WormBase Gene ID: WBGene00206365
• Gene Name: B0563.18
• Sequence Name: B0563.18
• Organism: Caenorhabditis elegans
• Automated Description: Enriched in neurons based on single-cell RNA-seq and RNA-seq studies. Is affected by etr-1 and mab-5 based on RNA-seq studies.
• Biotype: SO:0001217
• Genetic Position: :±
• Length (nt): 741

1 Organism

• Name: Caenorhabditis elegans
• Taxon Id: 6239

1 Synonyms

• Value: WBGene00206365

Genomics

1 Transcripts

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
Transcript:B0563.18.1	B0563.18.1	683	X: 9172578-9173318

Other

1 CDSs

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
CDS:B0563.18	B0563.18	273	X: 9172988-9173011

2 RNAi Result

• WBRNAi00039199
• WBRNAi00009865

12 Allele

• gk964260
• gk962707
• gk963732
• gk964126
• gk962830
• gk962831
• gk501265
• gk679805
• gk519791
• gk824540
• gk773803
• WBVar01470407

1 Chromosome

• WormBase ID: X
• Organism: Caenorhabditis elegans
• Length (nt): 17718942

1 Chromosome Location

• Feature . Primary Identifier: WBGene00206365
• Start: 9172578
• End: 9173318
• Strand: 1

2 Data Sets

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

1 Downstream Intergenic Region

• WormBase ID: intergenic_region_chrX_9173319..9173509
• Length (nt): 191
• Chromosome Location: X: 9173319-9173509
• Organism: Caenorhabditis elegans

16 Expression Clusters

Regulated By Treatment	Description	Algorithm	Primary Identifier
	Transcripts that showed significantly increased expression in L1 neural cells comparing to in adult neural cells.	DESeq2 (v1.18.1) fold change > 2, P-adj<0.05, using BenjaminiHochberg correction.	WBPaper00060811:L1_vs_adult_upregulated_neural
	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
	Genome-wide analysis of developmental and sex-regulated gene expression profile.	self-organizing map	cgc4489_group_9
	Single-cell RNA-Seq cell group 6_1 expressed in neuron.	scVI 0.6.0	WBPaper00065841:6_1
	Single-cell RNA-Seq cell group 6_2 expressed in neuron.	scVI 0.6.0	WBPaper00065841:6_2
	Single-cell RNA-Seq cell group 6_3 expressed in neuron.	scVI 0.6.0	WBPaper00065841:6_3
	Transcripts that showed significantly increased expression in Q cells isolated from mab-5(gk670) animals, comparing to Q cells isolated from N2 animals.	DESeq2 (version 2.11.40.7) FDR < 0.05, log2 fold change > 1.5 or < -1.5.	WBPaper00066652:mab-5(gk670)_upregulated_Q-cell
	Top 300 transcripts enriched in DA1, DA2, DA3, DA4, DA5, DA6, DA7, DA8, DA9, DB1, DB2, DB3, DB4, DB5, DB6, DB7 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:DA_DB
	Single-cell RNA-Seq cell group 6_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:6_0
	Transcripts enriched in VA3_8 according to single cell RNAseq.	Genes that pass the Bonferroni threshold for multiple comparisons (q < 0.05) are significantly enriched.	WBPaper00066550:VA3_8_enriched
	Transcripts enriched in DB3_7 according to single cell RNAseq.	Genes that pass the Bonferroni threshold for multiple comparisons (q < 0.05) are significantly enriched.	WBPaper00066550:DB3_7_enriched
	Transcripts enriched in DA2_5 according to single cell RNAseq.	Genes that pass the Bonferroni threshold for multiple comparisons (q < 0.05) are significantly enriched.	WBPaper00066550:DA2_5_enriched
	Single-cell RNA-Seq cell group 14_2 expressed in neuron.	scVI 0.6.0	WBPaper00065841:14_2
	Single-cell RNA-Seq cell group 14_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:14_0
	Transcripts enriched in AS11 according to single cell RNAseq.	Genes that pass the Bonferroni threshold for multiple comparisons (q < 0.05) are significantly enriched.	WBPaper00066550:AS11_enriched

2 Expression Patterns

• Primary Identifier: Expr1143343
• Pattern: Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015

• Primary Identifier: Expr2000245
• 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: WBGene00206365
• Start: 9172578
• End: 9173318
• Strand: 1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

• Length: 741

1 Sequence Ontology Term