WormMine: Gene WBGene00219687

• WormBase Gene ID: WBGene00219687
• Gene Name: linc-12
• Sequence Name: F34D6.11
• Organism: Caenorhabditis elegans
• Automated Description: Enriched in anterior distal tip cell based on single-cell RNA-seq studies. Is affected by several genes including etr-1; rrf-3; and pptr-1 based on RNA-seq and microarray studies. Is affected by paraquat based on RNA-seq studies.
• Biotype: SO:0001641
• Genetic Position: II :-12.1544±
• Length (nt): 251

1 Organism

• Name: Caenorhabditis elegans
• Taxon Id: 6239

1 Synonyms

• Value: WBGene00219687

Genomics

1 Transcripts

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
Transcript:F34D6.11	F34D6.11	195	II: 2681408-2681658

Other

0 CDSs

0 RNAi Result

8 Allele

• gk964317
• gk963801
• WBVar01764976
• WBVar00214744
• WBVar00167576
• gk863179
• gk699942
• gk704681

1 Chromosome

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

1 Chromosome Location

• Feature . Primary Identifier: WBGene00219687
• Start: 2681408
• End: 2681658
• Strand: -1

2 Data Sets

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

1 Downstream Intergenic Region

• WormBase ID: intergenic_region_chrII_2681219..2681407
• Length (nt): 189
• Chromosome Location: II: 2681219-2681407
• Organism: Caenorhabditis elegans

26 Expression Clusters

Regulated By Treatment	Description	Algorithm	Primary Identifier
	Transcripts that showed significantly increased 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)_upregulated_embryo
	Transcripts that showed significantly increased expression after exposure to 75uM paraquat(PQ) from L1 to day 2 adult stage in skn-1(lax188) animals	fold change > 2	WBPaper00058711:paraquat_upregulated
25C vs. 20C	Transcripts that showed significantly increased 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_upregulated
	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
Bacteria infection: Pseudomonas aeruginosa PA14. 24 hours of exposure at 25C.	Transcripts that showed significantly increased expression in N2 animals with 24 hours of exposure to P. aeruginosa PA14 for 24 hrs at 25C, comparing to N2 animals without exposure to PA14.	DESeq2, fold change > 2, FDR < 0.05.	WBPaper00058948:PA14_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
Bacteria: B.thuringiensis	Transcripts in elt-2(RNAi) animals that were significantly differentially expressed at least for one time point and one pathogenic strain Bt247 and Bt679 compared to the non pathogenic strain Bt407.	Cuffdiff	WBPaper00060358:B.thuringiensis_pathogen_regulated_elt-2(RNAi)
Bacteria diet: Clostridium butyricum MIYAIRI 588 (CBM 588)	Transcripts that showed significantly decreased expression after fed with probiotic bacteria Clostridium butyricum MIYAIRI 588 (CBM 588) for five days, comparing to control groups that were fed with OP50.	DESeq 1.30.0, log2 fold change > 2, p-value < 0.05	WBPaper00055944:C.butyricum_vs_OP50_downregulated
Temperature Shift: 25C vs 15C for 16 hours at L4 larva stage.	Transcripts that showed significantly increased 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_upregulated_WholeAnimal
	Transcripts that showed significantly decreased 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)_downregulated
	Transcripts that showed significantly decreased expression glp-1(e2141); TU3401 animals comparing to in TU3401 animals.	Fold change > 2, FDR < 0.01.	WBPaper00065993:glp-1(e2141)_downregulated
Temperature Shift: 25C vs 15C for 16 hours at L4 larva stage.	Transcripts that showed significantly increased 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_upregulated_AFD
	Transcripts that showed significantly increased expression in unc-70(cas983) comparing to in N2 at L1 larva stage.	DESeq2, fold change >= 2, FDR <= 0.05	WBPaper00057041:unc-70(cas983)_upregulated
	Transcripts that showed significantly decreased expression in cat-2(e1112);odIs77 comparing to in odIs77 control animals.	EdgeR, FDR<0.01	WBPaper00060921:cat-2(e1112)_downregulated
	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 decreased expression in eat-2(ad465) comparing to in N2.	Student's t-test, fold change > 2, p-value < 0.05.	WBPaper00055386:eat-2(ad465)_downregulated
	Transcripts that showed significantly decreased expression in jmjd-5(zr1234) comparing to in N2 animals.	DESeq2, adjusted p value < 0.01 and absolute log2FC > = 1.	WBPaper00062156:jmjd-5(zr1234)_updownregulated
	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
	Targets of endo-siRNA that showed significantly increased expression in BFF39[pptr-1(tm3103);Pmex-5::gfp::h2b::tbb-2 (mjIs134 II)] 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:pptr-1(tm3103)_upregulated
	Transcripts that showed significantly decreased expression in tdc-1(n3419);odIs77 comparing to in odIs77 control animals.	EdgeR, FDR<0.01	WBPaper00060921:tdc-1(n3419)_downregulated
	Single-cell RNA-Seq cell group 31_0 expressed in gonad.	scVI 0.6.0	WBPaper00065841:31_0
	Transcripts that showed significantly increased expression in rrf-3(pk1426) comparing to in N2 at L2 larva stage.	DESeq2v 1.18.1, fold change > 1.5, adjusted p-value < 0.01.	WBPaper00056169:rrf-3(pk1426)_upregulated_L2
Bacteria infection: Pseudomonas aeruginosa PA14. 24 hours of exposure.	Small RNAs (21-26nt) that showed significantly decreased expression after L4 animals were exposed to P .aeruginosa strain PA14 for 24 hours.	DESeq2, FDR < 0.05	WBPaper00056868:P.aeruginosa_downregulated_smallRNA
	Transcripts that showed significantly increased expression in uaf-1(n4588) comparing to in N2 at embryo stage.	DEGSeq 1.18.0, p < 0.05, fold change > 2.	WBPaper00055364:uaf-1(n4588)_upregulated
Growth temperature	Transcripts that are significantly upregulated at 25C compared to both 15C and 20C, with no statistical difference between 15C and 20C, in worms feeding E. coli OP50.	DESeq2 and EdgeR, adjusted p-value < 0.05.	WBPaper00053814:25C_upregulated_OP50
	Transcripts that showed significantly increased expression in rrf-3(pk1426) comparing to in N2 at L1 larva stage.	DESeq2v 1.18.1, fold change > 1.5, adjusted p-value < 0.01.	WBPaper00056169:rrf-3(pk1426)_upregulated_L1

0 Expression Patterns

0 GO Annotation

0 Homologues

1 Locations

• Feature . Primary Identifier: WBGene00219687
• Start: 2681408
• End: 2681658
• Strand: -1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

• Length: 251

1 Sequence Ontology Term