WormMine: Gene WBGene00235304

• WormBase Gene ID: WBGene00235304
• Gene Name: Y116A8C.468
• Sequence Name: Y116A8C.468
• Organism: Caenorhabditis elegans
• Automated Description: Is affected by damt-1; alh-4; and mip-1 based on RNA-seq studies. Is affected by four chemicals including antimycin; Doxycycline; and Tamoxifen based on RNA-seq studies.
• Biotype: SO:0001217
• Genetic Position: :±
• Length (nt): 123

1 Organism

• Name: Caenorhabditis elegans
• Taxon Id: 6239

1 Synonyms

• Value: WBGene00235304

Genomics

1 Transcripts

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
Transcript:Y116A8C.468.1	Y116A8C.468.1	123	IV: 16918379-16918501

Other

1 CDSs

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
CDS:Y116A8C.468	Y116A8C.468	123	IV: 16918379-16918501

2 RNAi Result

• WBRNAi00044748
• WBRNAi00013385

9 Allele

• gk964078
• gk964500
• gk962765
• gk963590
• gk963795
• gk962529
• gk963948
• gk963888
• WBVar02122004

1 Chromosome

• WormBase ID: IV
• Organism: Caenorhabditis elegans
• Length (nt): 17493829

1 Chromosome Location

• Feature . Primary Identifier: WBGene00235304
• Start: 16918379
• End: 16918501
• Strand: 1

2 Data Sets

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

1 Downstream Intergenic Region

• WormBase ID: intergenic_region_chrIV_16918502..16919150
• Length (nt): 649
• Chromosome Location: IV: 16918502-16919150
• Organism: Caenorhabditis elegans

12 Expression Clusters

Regulated By Treatment	Description	Algorithm	Primary Identifier
	Transcripts that showed significantly decreased expression in N2 animals exposed to 0.1mM Paraquat from hatching to reaching adult stage.	DESeq2 version 1.22.2, p < 0.05	WBPaper00064716:paraquat_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 altered expression from P0 to F2 generation animals after N2 parental generation were treated with antimycin, but not in damt-1(gk961032) P0 to F2 animals after the parenal generaton were treated with antimycin.	N.A.	WBPaper00055862:antimycin_damt-1(gk961032)_regulated
	siRNAs that showed significantly lower expression (log2fold > 2, padj < 0.01) in hermaphrodite gonad (somatic gonad plus germine) than in male gonad (somatic gonad plus germine).	DESeq2 v1.13.8, fold change > 2, FDR < 0.01.	WBPaper00056161:male_enriched_siRNA
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 mip-1(how5) comparing to in control animals.	DESeq2, fold change > 2.	WBPaper00066038:mip-1(how5)_upregulated
Bacteria diet: Escherichia coli HB101. Fed for 30 generations.	Transcripts that showed significantly increased expression after fed by bacteria E. coli HB101 for 30 generations comparing to animals fed by E. coli OP50.	DESeq2 fold change > 2, p-value < 0.01.	WBPaper00061007:HB101_upregulated
	Transcripts that showed significantly increased expression in N2 animals growing in 15mg per mL doxycycline from L1 to L4 larva stage.	edgeR (version 3.24.3), fold change > 4, FDR < 0.01.	WBPaper00062456:doxycycline_upregulated_N2_transcript
	Genes that were enriched in spermatogenic fem-3(q96gf) gonads comparing to in oogenic fog-2(q71), according to RNAseq analysis.	To identify differentially expressed transcripts, authors used R/Bioconductor package DESeq.	WBPaper00045521:Spermatogenic
	Transcripts that showed significantly decreased expression in animals exposed to 400uM tamoxifen from L1 to L4 larva stage.	DEseq2, fold change > 2	WBPaper00064505:tamoxifen_downregulated
	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 decreased expression in alh-4(hj221) deletion allele comparing to in N2.	N.A.	WBPaper00061653:alh-4(hj221)_downregulated

1 Expression Patterns

• Primary Identifier: Expr2007057
• 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: WBGene00235304
• Start: 16918379
• End: 16918501
• Strand: 1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

• Length: 123

1 Sequence Ontology Term