WormMine

WS295

Intermine data mining platform for C. elegans and related nematodes

Gene :

WormBase Gene ID  ? WBGene00200268 Gene Name  F01G12.16
Sequence Name  ? F01G12.16 Organism  Caenorhabditis elegans
Automated Description  Enriched in head mesodermal cell based on RNA-seq studies. Is affected by pgrn-1; tdp-1; and ogt-1 based on RNA-seq studies. Biotype  SO:0001263
Genetic Position  Length (nt)  ? 277
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1 Organism

Name Taxon Id
Caenorhabditis elegans 6239

1 Synonyms

Value
WBGene00200268

Genomics

1 Transcripts

WormMine ID Sequence Name Length (nt) Chromosome Location
Transcript:F01G12.16 F01G12.16 277   X: 16387963-16388239
 

Other

0 CDSs

0 RNAi Result

6 Allele

Public Name
gk964260
gk962707
gk963810
gk963581
gk372323
gk777362

1 Chromosome

WormBase ID Organism Length (nt)
X Caenorhabditis elegans 17718942  

1 Chromosome Location


Feature . Primary Identifier
Start End Strand
WBGene00200268 16387963 16388239 1

2 Data Sets

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

0 Downstream Intergenic Region

6 Expression Clusters

Regulated By Treatment Description Algorithm Primary Identifier
  Transcripts that showed significantly lower expression in somatic gonad precursor cells (SGP) vs. head mesodermal cells (hmc). DESeq2, fold change >= 2, FDR <= 0.01. WBPaper00056826:hmc_biased
  Transcripts that showed significantly decreased expression in day 3 adult hermaphrodite comparing to in L4 larva fem-3(q20) animals. Fold change > 2, FDR < 0.05 WBPaper00064088:Day-3-adult_vs_L4_downregulated_fem-3(q20)
  Transcripts that showed significantly decreased 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)_downregulated_neuron
  Genes that were enriched in spermatogenic fem-3(q96gf) gonads comparing to in oogenic fog-2(q71), according to RNAseq analysis. To identify differentially expressed transcripts, authors used R/Bioconductor package DESeq. WBPaper00045521:Spermatogenic
  Genes that are significantly down regulated in tdp-1(ok803) poly(A) RNA-seq verses in N2. DESeq v1.14, with cut-off p-value < 0.05 and FDR < 0.1. WBPaper00046012:tdp-1(ok803)_downregulated
  Genes differentially expressed in pgrn-1(tm985) and ced-1(e1735) but not in ced-3(n717) as compared to N2E. Differential expression analysis was performed using the EdgeR Bioconductor package (19910308), and differentially expressed genes were selected based on False Discovery Rate (FDR Benjamini Hochberg adjusted p-values) estimated at <=5%. WBPaper00044246:pgrn-1_ced-1_downregulated

0 Expression Patterns

0 GO Annotation

0 Homologues

1 Locations


Feature . Primary Identifier
Start End Strand
WBGene00200268 16387963 16388239 1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

Length
277

1 Sequence Ontology Term