WormMine: Gene WBGene00195144

• WormBase Gene ID: WBGene00195144
• Gene Name: C16D2.3
• Sequence Name: C16D2.3
• Organism: Caenorhabditis elegans
• Automated Description: Enriched in ASEL and ASER based on single-cell RNA-seq studies. Is affected by several genes including qui-1; rrf-3; and mrps-5 based on RNA-seq and microarray studies. Is affected by cholesterol based on RNA-seq studies.
• Biotype: SO:0001217
• Genetic Position: :±
• Length (nt): 377

1 Organism

• Name: Caenorhabditis elegans
• Taxon Id: 6239

1 Synonyms

• Value: WBGene00195144

Genomics

1 Transcripts

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
Transcript:C16D2.3.1	C16D2.3.1	278	II: 9138103-9138479

Other

1 CDSs

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
CDS:C16D2.3	C16D2.3	213	II: 9138120-9138263

0 RNAi Result

10 Allele

• gk963801
• gk963053
• gk962682
• gk962798
• WBVar00238447
• WBVar00174454
• WBVar01377167
• gk754284
• WBVar01309163
• tm11436

1 Chromosome

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

1 Chromosome Location

• Feature . Primary Identifier: WBGene00195144
• Start: 9138103
• End: 9138479
• Strand: 1

2 Data Sets

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

1 Downstream Intergenic Region

• WormBase ID: intergenic_region_chrII_9138480..9139649
• Length (nt): 1170
• Chromosome Location: II: 9138480-9139649
• Organism: Caenorhabditis elegans

15 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
	Transcripts that showed differential expression between 24 and 26 hours post hatching L2d and dauer committed larvae of daf-9(dh6), triggered by the dafachronic acid (DA) growth hormone. Cluster 3 genes increased expression transiently at 26 hour post hatching.	Benjamini Hochberg corrected q-value < 0.01.	WBPaper00053388:dauer_regulated_Cluster3
	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 unc-30(ok613) animals at L4 larva stage, comparing to N2 animals.	Genes exhibiting at least two-fold change were considered differentially expressed.	WBPaper00061439:unc-30(ok613)_upregulated
25C vs. 20C	Transcripts that showed significantly decreased expression in 1-day post L4 adult hermaphrodite N2 grown at 25C, comparing to in N2 animals grown at 20C.	CuffDiff, fold change > 2.	WBPaper00065096:25C_vs_20C_downregulated
	Transcripts that showed significantly increased expression in nhr-8(hd117) comparing to in N2.	Differentially expressed genes were identified using Sleuth (version 0.30.0).	WBPaper00062446:nhr-8(hd117)_upregulated
	Transcripts that showed significantly increased expression in mrps-5(RNAi) comparing to in control animals.	Fold change > 4, p-value < 0.01	WBPaper00056330:mrps-5(RNAi)_upregulated
	Transcripts that showed significantly decreased expression in 10-days post L4 adult hermaphrodite N2 grown at 20C, comparing to in 1-day post L4 adult hermaphrodite N2 animals grown at 20C.	CuffDiff, fold change > 2.	WBPaper00065096:Day10_vs_Day1_downregulated
	Transcripts that showed significantly increased expression when grown with 20ug per ml cholesterol supplementation, comparing to animals grown with 5ug per ml supplementation.	DESeq2	WBPaper00059728:20ug_cholesterol_upregulated
	Transcripts that interact with endogenous EGL-43-GFP at L3 larva stage according to CHIP-Seq analysis.	N.A.	WBPaper00059471:EGL-43_interacting
	Transcripts that showed significantly decreased expression in eat-2(ad1113) comparing to in N2.	DESeq2. The genes with a fold change >= 2 and a false discovery rate (FDR) < 0.05 in a comparison were identified as significant DEGs.	WBPaper00065746:eat-2(ad1113)_downregulated
	Transcripts that showed significantly increased expression in rrf-3(pk1426) comparing to in N2 at L2 larva stage.	DESeq2v 1.18.1, fold change > 1.5, adjusted p-value < 0.01.	WBPaper00056169:rrf-3(pk1426)_upregulated_L2
	Transcripts that showed significantly increased expression in spt-16(RNAi) comparing to in vector control worm at L4 larva stage.	DESeq 2, fold change > 4, adjusted p-value < 0.05.	WBPaper00055013:spt-16(RNAi)_downregulated
	Transcripts that showed significantly increased expression in ADL neurons of qui-1(db104) comparing to in N2 at day 1 adult stage.	tximport 1.14.2 and DEseq2 1.26.0. Fold change > 2, FDR < 0.05.	WBPaper00062520:qui-1(db104)_upregulated
	Single-cell RNA-Seq cell group 35_4 expressed in neuron.	scVI 0.6.0	WBPaper00065841:35_4

3 Expression Patterns

• Primary Identifier: Expr1144772
• Pattern: Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015

• Primary Identifier: Expr2019094
• 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: Expr2000876
• 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: WBGene00195144
• Start: 9138103
• End: 9138479
• Strand: 1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

• Length: 377

1 Sequence Ontology Term