WormMine

WSWS298

An integrated data resource for C. elegans and related nematodes

Gene :

WormBase Gene ID  ? WBGene00197661 Gene Name  R12B2.9
Sequence Name  ? R12B2.9 Organism  Caenorhabditis elegans
Automated Description  Is affected by cep-1; met-2; and fzo-1 based on RNA-seq studies. Is affected by silicon dioxide nanoparticle based on microarray studies. Biotype  SO:0001263
Genetic Position  :± Length (nt)  ? 150
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1 Organism

Name Taxon Id
Caenorhabditis elegans 6239

1 Synonyms

Value
WBGene00197661

Genomics

1 Transcripts

WormMine ID Sequence Name Length (nt) Chromosome Location
Transcript:R12B2.9 R12B2.9 150   III: 5814520-5814669
 

Other

0 CDSs

0 RNAi Result

8 Allele

Public Name
gk964518
gk964338
gk964339
WBVar00099470
gk487532
WBVar01263947
gk467110
WBVar01952184

1 Chromosome

WormBase ID Organism Length (nt)
III Caenorhabditis elegans 13783801  

1 Chromosome Location


Feature . Primary Identifier 		Start End Strand
WBGene00197661 5814520 5814669 1

2 Data Sets

Name URL
WormBaseAcedbConverter  
C. elegans genomic annotations (GFF3 Gene)  

1 Downstream Intergenic Region

WormBase ID Name Sequence Name Length (nt) Chromosome Location Organism
intergenic_region_chrIII_5814670..5814759   90 III: 5814670-5814759 Caenorhabditis elegans

8 Expression Clusters

Regulated By Treatment Description Algorithm Primary Identifier
  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 that showed significantly increased expression in animals after 24 hour exposure to 100ug per ml silica nanoparticles (SiNPs). The random variance model (RVM)t-test was applied toidentify differentially expressed mRNAs and miRNAsbetween the SiNPs-treated group and the control group. P-value <0.05 and fold change (FC) >1.5 were considered as the threshold screening between the SiNP-treated groupand the control group. WBPaper00060100:SiNP_upregulated_mRNA
Bacteria infection: Vibrio cholerae A1552, 8 hours at L4 larva stage. Transcripts that showed significantly increased expression in shk-1(yum1003) animals infected by bacteria strain Vibrio cholerae A1552. DESeq2 v1.36.0, fold change > 2, FDR < 0.05. WBPaper00067803:V.cholerae_upregulated_shk-1(yum1003)
  Transcripts that showed significantly increased expression in zcIs13; twnEx320[Punc-119-ds-fzo-1] comparing to in zcIs13[Phsp-6-gfp] animals. Fold change >= 1.5. WBPaper00061409:neuronal-fzo-1(RNAi)_upregulated
Bacteria Diet: L. plantarum with pdxH mutant vs. L. plantarum Transcripts that showed significantly increased expression in N2 animals fed with L. plantarum with pdxH mutant, comparing to in N2 animals fed with L. plantarum. GFold3, logFC < -1 or > 1. WBPaper00066703:L.plantarum-pdxH_upregulated
Bacteria infection: Vibrio cholerae A1552, 8 hours at L4 larva stage. Transcripts that showed significantly increased expression in N2 animals infected by bacteria strain Vibrio cholerae A1552. DESeq2 v1.36.0, fold change > 2, FDR < 0.05. WBPaper00067803:V.cholerae_upregulated_N2
  ncRNAs with significantly increased expression in cep-1(gk138) than in N2 under normal conditions, according to RNAseq. ncRNAs with more than 2 fold difference in expression are considered differentially expressed WBPaper00045380:cep-1(gk138)_upregulated_normal
  Transcripts that showed significantly increased expression in met-2(n4256) L1 animals comparing to in N2 control. DeSeq2 (v.2.11.40.2), p < 0.05. WBPaper00060886:met-2(n4256)_upregulated

0 Expression Patterns

0 GO Annotation

0 Homologues

1 Locations


Feature . Primary Identifier 		Start End Strand
WBGene00197661 5814520 5814669 1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

Length
150

1 Sequence Ontology Term

Identifier Name Description
gene  

0 Strains

1 Upstream Intergenic Region

WormBase ID Name Sequence Name Length (nt) Chromosome Location Organism
intergenic_region_chrIII_5812968..5814519   1552 III: 5812968-5814519 Caenorhabditis elegans