WormMine: Gene WBGene00269429

• WormBase Gene ID: WBGene00269429
• Gene Name: H43I07.4
• Sequence Name: H43I07.4
• Organism: Caenorhabditis elegans
• Automated Description: Enriched in neurons based on single-cell RNA-seq and RNA-seq studies. Is affected by several genes including etr-1; ilc-17.1; and pie-1 based on RNA-seq studies.
• Biotype: SO:0001217
• Genetic Position: :±
• Length (nt): 162

1 Organism

• Name: Caenorhabditis elegans
• Taxon Id: 6239

1 Synonyms

• Value: WBGene00269429

Genomics

1 Transcripts

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
Transcript:H43I07.4.1	H43I07.4.1	162	V: 4216156-4216317

Other

1 CDSs

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
CDS:H43I07.4	H43I07.4	162	V: 4216156-4216317

1 RNAi Result

• WBRNAi00011458

8 Allele

• gk963301
• gk963591
• gk963553
• gk964259
• gk964351
• gk963850
• gk964431
• WBVar01650220

1 Chromosome

• WormBase ID: V
• Organism: Caenorhabditis elegans
• Length (nt): 20924180

1 Chromosome Location

• Feature . Primary Identifier: WBGene00269429
• Start: 4216156
• End: 4216317
• Strand: 1

2 Data Sets

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

1 Downstream Intergenic Region

• WormBase ID: intergenic_region_chrV_4216318..4219641
• Length (nt): 3324
• Chromosome Location: V: 4216318-4219641
• Organism: Caenorhabditis elegans

33 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 decreased expression in tetraploid N2 comparing to diploid N2 animals at L4 larva stage.	DESeq2 R package (1.20.0), fold change > 2, and FDR < 0.05.	WBPaper00066110:tetraploid_vs_diploid_downregulated
	Transcripts that showed significantly increased expression in pie-1(ne4443[PIE-1-Degron-GFP])	DESeq2. Differentially expressed genes were defined as twofold change and adjusted p-value less than 0.05.	WBPaper00061478:pie-1(ne4433)_upregulated
	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 hda-2(ok1479) comparing to in N2 animals.	DESeq2 (version 1.28.1), FDR < 0.01, fold change > 2.	WBPaper00062159:hda-2(ok1479)_upregulated
	Single-cell RNA-Seq cell group 76_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:76_0
moderate static magnetic field	Transcripts that showed significantly increased expression after exposure to moderate static magnetic field.	N.A.	WBPaper00064509:static-magnetic-field_upregulated
	Top 300 transcripts enriched in SMBDL, SMBDR, SMBVL, SMBVR 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:SMB
	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 RID 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:RID
	Transcripts that showed significantly decreased expression in starved fasn-1(g14) animals comparing to in starved N2 animals.	edgeR 3.28, fold change > 2, FDR < 0.05.	WBPaper00064721:fasn-1(g14)_downregulated_starved
	Single-cell RNA-Seq cell group 126_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:126_0
	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 enriched in VA12 according to single cell RNAseq.	Genes that pass the Bonferroni threshold for multiple comparisons (q < 0.05) are significantly enriched.	WBPaper00066550:VA12_enriched
	Single-cell RNA-Seq cell group 136_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:136_0
	Single-cell RNA-Seq cell group 28_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:28_0
	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
	Top 300 transcripts enriched in AWBL, AWBR 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:AWB
	Single-cell RNA-Seq cell group 6_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:6_0
	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
	Single-cell RNA-Seq cell group 14_2 expressed in neuron.	scVI 0.6.0	WBPaper00065841:14_2
	Single-cell RNA-Seq cell group 46_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:46_0
	Single-cell RNA-Seq cell group 14_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:14_0
	Single-cell RNA-Seq cell group 87_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:87_0
	Single-cell RNA-Seq cell group 14_1 expressed in neuron.	scVI 0.6.0	WBPaper00065841:14_1
	Transcripts enriched in VB10_11 according to single cell RNAseq.	Genes that pass the Bonferroni threshold for multiple comparisons (q < 0.05) are significantly enriched.	WBPaper00066550:VB10_11_enriched

2 Expression Patterns

• Primary Identifier: Expr2022848
• 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: Expr2004622
• 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: WBGene00269429
• Start: 4216156
• End: 4216317
• Strand: 1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

• Length: 162

1 Sequence Ontology Term