WormMine: Gene WBGene00006315

• WormBase Gene ID: WBGene00006315
• Gene Name: sup-6
• Sequence Name: F58G1.10
• Brief Description: sup-6 encodes a U1 snRNA required for development to adulthood;sup-6(st19) mutants arrest as late larvae; the sup-6(st19) mutation is adominant, allele-specific suppressor of unc-13(e309), an intronic+1G-to-A transition in unc-13; sup-6(st19) is otherwise recessive, withno obvious phenotype in heterozygotes.
• Organism: Caenorhabditis elegans
• Automated Description: Is affected by several genes including ptl-1; ptrn-1; and etr-1 based on tiling array and RNA-seq studies. Is affected by Tunicamycin and sodium arsenite based on RNA-seq studies.
• Biotype: SO:0001268
• Genetic Position: II :12.5245 ±0.096794
• Length (nt): 165

1 Organism

• Name: Caenorhabditis elegans
• Taxon Id: 6239

1 Synonyms

• Value: WBGene00006315

Genomics

1 Transcripts

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
Transcript:F58G1.10	F58G1.10	165	II: 12944803-12944967

Other

0 CDSs

4 RNAi Result

• WBRNAi00022286
• WBRNAi00076128
• WBRNAi00033126
• WBRNAi00063634

6 Allele

• gk963801
• gk963053
• gk962684
• gk962526
• gk962527
• st19

1 Chromosome

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

1 Chromosome Location

• Feature . Primary Identifier: WBGene00006315
• Start: 12944803
• End: 12944967
• Strand: -1

2 Data Sets

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

0 Downstream Intergenic Region

23 Expression Clusters

Regulated By Treatment	Description	Algorithm	Primary Identifier
Osmotic stress	Transcripts that showed significantly altered expression with 500 mM salt (NaCl) vs 100 mM salt when food was present	DESeq(version 1.10.1), FDR < 0.05.	WBPaper00050726:OsmoticStress_regulated_Food
	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 depleted in purified oocyte P bodies comparing to in whole oocytes.	DESeq2, FDR < 0.05, fold change > 2.	WBPaper00065975:P-body_vs_oocyte_depleted
	Transcripts depleted in purified oocyte P bodies comparing to in the whole animal.	DESeq2, FDR < 0.05, fold change > 2.	WBPaper00065975:P-body_vs_WholeAnimal_depleted
	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 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 dpy-21(e428) comparing to in N2 during L3 stage.	DESeq v1.6.3. Fold change > 1.5.	WBPaper00050370:dpy-21(e428)_L3_upregulated
	Transcripts that showed significantly altered expression in rnp-6(dh1127) animals comparing to in N2 when fed with live S. aureus.	Differentially expressed genes (DEGs) (q-value <0.05) between different samples were identified using the stringtie version 1.3.0, followed by Cufflinks version 2.2.	WBPaper00059824:rnp-6(dh1127)_regulated_S.aureus
	Transcripts that showed significantly increased expression in animals lacking P granules by RNAi experiments targeting pgl-1, pgl-3, glh-1 and glh-4, and unc-119-GFP(+), comparing to in control animals, at 2-day post L4 adult hermaphrodite stage.	DESeq2, Benjamini-Hochberg multiple hypothesis corrected p-value < 0.05 and fold change > 2.	WBPaper00050859:upregulated_P-granule(-)GFP(+)_vs_control_day2-adult
	Transcripts that showed significantly increased expression in set-2(tm1630) animals at embryo stage, comparing to in N2 animals.	DESeq2 (v2.1.8.3) was used to determine DE genes and to generate principal component and scatter plots. DE genes with FDR < 0.05 were analysed using g:Profiler with Bonferroni correction.	WBPaper00060014:set-2(tm1630)_upregulated
	Transcripts that showed significantly increased expression in sftb-1(cer6) deletion homozygous comparing to to in N2 animals at L4 larva stage.	DESeq2, fold change > 2	WBPaper00058725:sftb-1(cer6)_upregulated
	Transcripts that interact with 3xFLAG-DLC-1 as identified by immunoprecipitation followed by RNA sequencing.	DESeq2, fold change > 2,, p-value < 0.01	WBPaper00055334:DLC-1_interacting
Bacteria infection: Pseudomonas aeruginosa PA14. 24 hours of exposure.	Small RNAs (21-26nt) that showed significantly increased expression after L4 animals were exposed to P .aeruginosa strain PA14 for 24 hours.	DESeq2, FDR < 0.05	WBPaper00056868:P.aeruginosa_upregulated_smallRNA
	Potental DAF-12 target genes identified by ChIP-chip analysis performed on strain ALF4 [daf-12	Affymetrix TAS software that computed for each probe estimates of fold enrichment (in linear scale) over hybridization with input DNA. At the same time, TAS calculated for each probe a p-value by applying a Wilcoxon signed rank test. A threshold of 2.5 was selected, which corresponds to probe intensities approximately 2.5 times stronger on the ChIP array than on the Input array. Additional TAS threshold parameters were MinRun=180 bp, MaxGap=300 bp. TAS analysis showed that the selected threshold of 2.5 corresponds approximately to a p-value of 0.01.	WBPaper00040221:DAF-12_target_ALF4
	Transcripts that showed significantly increased expression in ptl-1(ok621) comparing to in N2	DESeq2 1.14.1, fold change > 1.5, p-value < 0.01.	WBPaper00056039:ptl-1(ok621)_upregulated
	Transcripts of noncoding genes that showed significantly increased 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_enriched_noncoding-RNA
	Transcripts that showed significantly increased expression in strain CER276 sftb1(cer39[Q552P, R643C,K718E]) comparing to in N2 animals at L4 larva stage.	DESeq2, fold change > 2	WBPaper00058725:sftb-1(cer39)_upregulated
Starvation	Transcripts that showed significantly altered expression by starvation with 500 mM salt (NaCl)	DESeq(version 1.10.1), FDR < 0.05.	WBPaper00050726:starvation_regulated_HighSalt
	Promoters regions that bind with NHR-86 according to ChIP-Seq using NHR-86-GFP protein.	N.A.	WBPaper00056073:NHR-86_interacting_promoter
	Transcripts that showed significantly decreased expression in rrf-3(pk1426) comparing to in N2 at embryo stage.	DESeq2v 1.18.1, fold change > 1.5, adjusted p-value < 0.01.	WBPaper00056169:rrf-3(pk1426)_downregulated_embryo
	Transcripts that showed significantly increased expression after 4 hours of treatment by 50 ub per ml tunicamycin at L4 larva stage, in RtcB(null) animals.	Fold change > 1.75	WBPaper00045971:tunicamycin_upregulated_RtcB(null)
	Genes that showed significantly changed expression in oxidative stressed trx-1(ok1449) animals caused by 10mM sodium arsenite (NaAsO2) comparing to in unstressed trx-1(ok1449).	R-Bioconductor package.	WBPaper00049266:NaAsO2-Stress_regulated_trx-1(ok1449)
	Transcripts that showed significantly increased expression in ptrn-1(tm5597) comparing to in N2	DESeq2 1.14.1, fold change > 1.5, p-value < 0.01.	WBPaper00056039:ptrn-1(tm5597)_upregulated

0 Expression Patterns

0 GO Annotation

0 Homologues

1 Locations

• Feature . Primary Identifier: WBGene00006315
• Start: 12944803
• End: 12944967
• Strand: -1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

• Length: 165

1 Sequence Ontology Term