WormMine: Gene WBGene00077784

• WormBase Gene ID: WBGene00077784
• Gene Name: F35C8.9
• Sequence Name: F35C8.9
• Organism: Caenorhabditis elegans
• Automated Description: Enriched in neurons and spermathecal-uterine valve cell based on RNA-seq and single-cell RNA-seq studies. Is affected by several genes including etr-1; hpl-2; and hmg-3 based on RNA-seq and microarray studies. Is affected by cholesterol based on RNA-seq studies.
• Biotype: SO:0000336
• Genetic Position: :±
• Length (nt): 1166

1 Organism

• Name: Caenorhabditis elegans
• Taxon Id: 6239

1 Synonyms

• Value: WBGene00077784

Genomics

0 Transcripts

Other

0 CDSs

0 RNAi Result

27 Allele

• gk964260
• gk963776
• gk963777
• WBVar02063802
• WBVar01601746
• WBVar01601745
• WBVar00078984
• WBVar00274255
• WBVar00026701
• WBVar01879258
• WBVar01879259
• gk564816
• gk682885
• gk925121
• gk730483
• gk668624
• gk502402
• gk496232
• gk445228
• gk280354
• gk280353
• gk280352
• WBVar02046410
• gk596207
• gk741134
• gk723929
• gk542794

1 Chromosome

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

1 Chromosome Location

• Feature . Primary Identifier: WBGene00077784
• Start: 5373032
• End: 5374197
• Strand: 1

2 Data Sets

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

1 Downstream Intergenic Region

• WormBase ID: intergenic_region_chrX_5374198..5375058
• Length (nt): 861
• Chromosome Location: X: 5374198-5375058
• Organism: Caenorhabditis elegans

28 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
Bacteria infection: Enterococcus faecalis OG1RF. 16 hours of exposure after L4 larva stage at 25C.	Transcripts that showed significantly decreased expression in N2 animals fed by E. faecalis strain OG1RF for 16 hours after L4 larva stage at 25C.	DESeq2, fold change > 2.	WBPaper00061081:E.faecalis_downregulated_N2
	Transcripts that showed significantly decreased expression in hpl-2(tm1489) comparing to in N2 animals.	DESeq2, adjusted p-value < 0.05, log2 fold change > 2 or < -2.	WBPaper00054493:hpl-2(tm1489)_downregulated
	Transcripts that showed significantly increased expression in BAT525 [hmg-3 (tm2539) / dpy-5(e61) unc-13(e1091) I.] comparing to in N2 at 1-day post L4 adult hermaphrodite stage.	DESeq 2, fold change > 4, adjusted p-value < 0.05.	WBPaper00055013:hmg-3(bar24)_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
	Genome-wide analysis of developmental and sex-regulated gene expression profile.	self-organizing map	cgc4489_group_22
	Transcripts that showed significantly increased expression in animals with pan-neuronal expression of human amyloid beta (snb-1p-Amyloid-beta(1-42) + mtl-2p-GFP), comparing to in N2 animals.	edgeR p-value < 0.01 and fold change > 4.	WBPaper00061613:human-amyloid-beta_upregulated
	Transcripts that showed significantly decreased expression in lin-53(RNAi) embryos comparing to control animals.	DESeq2, fold change > 2, FDR < 0.05.	WBPaper00067044:lin-53(RNAi)_downregulated
	Single-cell RNA-Seq cell group 109_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:109_0
	Transcripts that showed significantly decreased expression in daf-2(e1370) comparing to in N2.	Student's t-test, fold change > 2, p-value < 0.05.	WBPaper00055386:daf-2(e1370)_downregulated
	Transcripts that showed significantly increased expression in animals with pan-neuronal expression of both human amyloid beta (snb-1p-Amyloid-beta(1-42) + mtl-2p-GFP) and human alpha-Synuclein(A53T) (aex-3p-alpha-syn (A53T)), comparing to in N2 animals.	edgeR p-value < 0.01 and fold change > 4.	WBPaper00061613:human-amyloid-beta_alpha-Synuclein(A53T)_upregulated
	Transcripts significantly enriched in AVK neurons comparing to all cell types at L1 larva stage.	edgeR, FDR < 0.001, fold change > 2.	WBPaper00055565:AVK_enriched
	Single-cell RNA-Seq cell group 125_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:125_0
	Transcripts that showed significantly decreased expression in sams-3(RNAi) comparing to N2 animals injected with empty vector.	Deseq FDR < 0.01, fold change > 2.	WBPaper00065005:sams-3(RNAi)_downregulated
	Single-cell RNA-Seq cell group 65_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:65_0
	Single-cell RNA-Seq cell group 139_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:139_0
	Transcripts that showed significantly decreased expression when grown with 20ug per ml cholesterol supplementation, comparing to animals grown with 5ug per ml supplementation.	DESeq2	WBPaper00059728:20ug_cholesterol_downregulated
	Single-cell RNA-Seq cell group 123_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:123_0
	Transcripts of noncoding 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_noncoding-RNA
	Transcripts that showed significantly decreased expression in sams-4(RNAi) comparing to N2 animals injected with empty vector.	Deseq FDR < 0.01, fold change > 2.	WBPaper00065005:sams-4(RNAi)_downregulated
	Single-cell RNA-Seq cell group 72_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:72_0
	Single-cell RNA-Seq cell group 58_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:58_0
	Single-cell RNA-Seq cell group 124_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:124_0
	Transcripts enriched in PVM according to single cell RNAseq.	Genes that pass the Bonferroni threshold for multiple comparisons (q < 0.05) are significantly enriched.	WBPaper00061651:PVM_enriched
	Single-cell RNA-Seq cell group 60_0 expressed in valve.	scVI 0.6.0	WBPaper00065841:60_0
	Single-cell RNA-Seq cell group 55_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:55_0
	Single-cell RNA-Seq cell group 17_0 expressed in neuron.	scVI 0.6.0	WBPaper00065841:17_0
	Transcripts enriched in AVF according to single cell RNAseq.	Genes that pass the Bonferroni threshold for multiple comparisons (q < 0.05) are significantly enriched.	WBPaper00061651:AVF_enriched

1 Expression Patterns

• Primary Identifier: Expr1150204
• Pattern: Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015

0 GO Annotation

0 Homologues

1 Locations

• Feature . Primary Identifier: WBGene00077784
• Start: 5373032
• End: 5374197
• Strand: 1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

• Length: 1166

1 Sequence Ontology Term