WormMine: Gene WBGene00220168

• WormBase Gene ID: WBGene00220168
• Gene Name: Y48A6C.10
• Sequence Name: Y48A6C.10
• Organism: Caenorhabditis elegans
• Automated Description: Enriched in germ line based on RNA-seq studies. Is affected by several genes including dpy-21; lpd-3; and ints-5 based on RNA-seq studies.
• Biotype: SO:0001267
• Genetic Position: :±
• Length (nt): 124

1 Organism

• Name: Caenorhabditis elegans
• Taxon Id: 6239

1 Synonyms

• Value: WBGene00220168

Genomics

1 Transcripts

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
Transcript:Y48A6C.10	Y48A6C.10	124	III: 11118361-11118484

Other

0 CDSs

4 RNAi Result

• WBRNAi00056870
• WBRNAi00020730
• WBRNAi00006375
• WBRNAi00037225

15 Allele

• gk964518
• gk963887
• WBVar02124962
• WBVar02123680
• WBVar02124961
• WBVar02121418
• tm1810
• WBVar02078735
• gk581310
• gk856926
• WBVar02122381
• WBVar02121006
• gk962649
• gk185525
• WBVar02123231

1 Chromosome

• WormBase ID: III
• Organism: Caenorhabditis elegans
• Length (nt): 13783801

1 Chromosome Location

• Feature . Primary Identifier: WBGene00220168
• Start: 11118361
• End: 11118484
• Strand: 1

2 Data Sets

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

0 Downstream Intergenic Region

15 Expression Clusters

Regulated By Treatment	Description	Algorithm	Primary Identifier
	Transcripts that showed significantly increased 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_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 detected in germline isolated from day-1 adult hermaphrodite animals.	All three experiments have CPM >= 1.	WBPaper00067147:germline_expressed
	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 ints-5(RNAi) comparing to in N2.	DESeq2 and edgeR.	WBPaper00056284:ints-5(RNAi)_upregulated
	Transcripts that showed significantly increased expression in JCP294 ints-6(t1903) IV (ints-6 is also known as dic-1) comparing to in N2.	DESeq2 and edgeR.	WBPaper00056284:ints-6(t1903)_upregulated
	Transcripts that showed significantly decreased expression in whole animal day 1 N2 adults comparing to in whole animal day 8 N2 adults.	DESeq2, FDR < 0.05, fold change > 2.	WBPaper00066978:Day1Adult_vs_Day8Adult_downregulated_neuron
	Transcripts enriched in germline by comparing dissected germline tissue with dissected intestine tissue, both injected with empty RNAi vector.	Genes were determined germline-enriched if the lowest expression value (log2(FPKM+1)) observed in the germline empty vector samples was at least 2-fold higher than the highest expression value observed in the intestine empty vector samples.	WBPaper00051039:germline_enriched
	Targets of endo-siRNA that showed significantly increased expression in BFF40[meg-3(tm4259);meg-4(ax2026);mex-5::gfp::h2b::tbb-2] comparing to in SX1263[Pmex-5::gfp::h2b::tbb-2 (mjIs134 II)] dissected gonad isolated from 1-day old adult hermaphrodites.	DESeq2, fold change > 2, FDR < 0.01	WBPaper00057140:meg-3(tm4259)_meg-4(ax2026)_upregulated
Temperature Shift: 25C vs 15C for 16 hours at L4 larva stage.	Transcripts that showed significantly decreased expression in AFD neurons at lin-15(n765ts); oyIs95 animals shifted from 20C to 25C for 16 hours at L4 larva stage, comparing to animals shifted from 20C to 15C for 16 hours at L4 larva stage.	DESeq2, fold change > 2, FDR < 0.05.	WBPaper00065158:25C_vs_15C_downregulated_AFD
Temperature Shift: 25C vs 15C for 16 hours at L4 larva stage.	Transcripts that showed significantly decreased expression in whole animal at lin-15(n765ts); oyIs95 animals shifted from 20C to 25C for 16 hours at L4 larva stage, comparing to animals shifted from 20C to 15C for 16 hours at L4 larva stage.	DESeq2, fold change > 2, FDR < 0.05.	WBPaper00065158:25C_vs_15C_downregulated_WholeAnimal
	Genes with small RNAs upregulated in all four meg-3(ax3055) meg-4(ax3052) strains comparing to N2	DESeq2	WBPaper00057162:meg-3_meg-4_upregulated_sRNA
	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
	Transcripts that showed significantly decreased expression in lpd-3(ok2138) comparing to in N2 animals.	DESeq2, fold change > 4, FDR < 0.05.	WBPaper00064661:lpd-3(ok2138)_downregulated
	Genes that exhibit a differential enrichment (p-value < 0.05 and a fold enrichment (log2fold)> 0.5) between the ADR-2 IPs from adr-1(tm668) worms and adr-2(ok735) worm.	DESeq2, p-value < 0.05 and a fold enrichment log2fold > 0.5.	WBPaper00055226:ADR-2_target_adr-1(tm668)

0 Expression Patterns

0 GO Annotation

0 Homologues

1 Locations

• Feature . Primary Identifier: WBGene00220168
• Start: 11118361
• End: 11118484
• Strand: 1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

• Length: 124

1 Sequence Ontology Term