WormMine

WSWS298

An integrated data resource for C. elegans and related nematodes

Gene :

WormBase Gene ID  ? WBGene00197773 Gene Name  T27A10.8
Sequence Name  ? T27A10.8 Organism  Caenorhabditis elegans
Automated Description  Is affected by several genes including npr-8; emr-1; and hmg-3 based on RNA-seq and microarray studies. Is affected by five chemicals including ethanol; sodium arsenite; and bisphenol A based on RNA-seq studies. Biotype  SO:0001263
Genetic Position  :± Length (nt)  ? 188
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1 Organism

Name Taxon Id
Caenorhabditis elegans 6239

1 Synonyms

Value
WBGene00197773

Genomics

1 Transcripts

WormMine ID Sequence Name Length (nt) Chromosome Location
Transcript:T27A10.8 T27A10.8 188   X: 3572379-3572566
 

Other

0 CDSs

0 RNAi Result

10 Allele

Public Name
gk963725
gk964260
gk962556
gk963502
WBVar02123553
WBVar02121347
WBVar02122052
gk340778
gk515133
gk276134

1 Chromosome

WormBase ID Organism Length (nt)
X Caenorhabditis elegans 17718942  

1 Chromosome Location


Feature . Primary Identifier 		Start End Strand
WBGene00197773 3572379 3572566 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_chrX_3572567..3572843   277 X: 3572567-3572843 Caenorhabditis elegans

34 Expression Clusters

Regulated By Treatment Description Algorithm Primary Identifier
  Transcripts that showed significantly increased expression in day 1 adult hermaphrodite comparing to in L4 larva daf-16(mu86);glp-1(e2141) animals. Fold change > 2, FDR < 0.05 WBPaper00064088:Day-1-adult_vs_L4_upregulated_daf-16(mu86);glp-1(e2141)
  Transcripts that showed significantly increased expression in day 1 adult hermaphrodite comparing to in L4 larva fem-3(q20) animals. Fold change > 2, FDR < 0.05 WBPaper00064088:Day-1-adult_vs_L4_upregulated_fem-3(q20)
  Transcripts that showed significantly increased expression in day 1 adult hermaphrodite comparing to in L4 larva glp-1(e2141) animals. Fold change > 2, FDR < 0.05 WBPaper00064088:Day-1-adult_vs_L4_upregulated_glp-1(e2141)
  Transcripts that showed significantly increased 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_upregulated_fem-3(q20)
  Transcripts that showed significantly decreased expression in day 9 adult hermaphrodites comparing to in day 3 adult animals. DESeq2 v.1.16.1, fold change > 3, FDR < 0.05 WBPaper00067623:Day9_vs_Day3_downregulated
  Transcripts that showed significantly decreased expression in day 17 adult hermaphrodites comparing to in day 3 adult animals. DESeq2 v.1.16.1, fold change > 3, FDR < 0.05 WBPaper00067623:Day17_vs_Day3_downregulated
  Transcripts that showed significantly decreased expression in day 17 adult hermaphrodites comparing to in day 9 adult animals. DESeq2 v.1.16.1, fold change > 3, FDR < 0.05 WBPaper00067623:Day17_vs_Day9_downregulated
  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 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 decreased expression in 10-days post L4 adult hermaphrodite npr-8(ok1439) animals grown at 20C, comparing to in N2 animals. CuffDiff, fold change > 2. WBPaper00065096:npr-8(ok1439)_downregulated_Day10_20C
  Transcripts that showed significantly increased expression in BAT525 [hmg-3 (tm2539) / dpy-5(e61) unc-13(e1091) I.] comparing to in N2 at 1-day post L4 adult hermaphrodite stage. DESeq 2, fold change > 4, adjusted p-value < 0.05. WBPaper00055013:hmg-3(bar24)_upregulated
  Genes that were not enriched in either spermatogenic fem-3(q96gf) nor oogenic fog-2(q71) gonads, according to RNAseq analysis. To identify differentially expressed transcripts, authors used R/Bioconductor package DESeq. WBPaper00045521:Gender_Neutral
  Transcripts that showed significantly increased expression in day 3 adult hermaphrodite comparing to in L4 larva daf-16(mu86);glp-1(e2141) animals. Fold change > 2, FDR < 0.05 WBPaper00064088:Day-3-adult_vs_L4_upregulated_daf-16(mu86);glp-1(e2141)
  Transcripts that showed significantly increased expression in day 3 adult hermaphrodite comparing to in L4 larva glp-1(e2141) animals. Fold change > 2, FDR < 0.05 WBPaper00064088:Day-3-adult_vs_L4_upregulated_glp-1(e2141)
  Transcripts that showed significantly decreased expression in hsp-4(RNAi) comparing to N2 animals with control vector. edgeR (v3.19, Bioconductor), p < 0.05, log2FC > 1.5 or < -1.5 WBPaper00068266:hsp-4(RNAi)_downregulated_N2
  Genes that showed decreased mRNA expression in emr-1(RNAi);lem-2(tm1582) comparing to N2. Library siggenes in R was applied to select the differentially expressed loci using the false discovery rate-based SAM method. Genes presenting a delta value > 4 were considered to be significantly altered. WBPaper00044786:emr-1(RNAi);lem-2(tm1582)_downregulated
Bacteria: Pseudomonas donghuensis HYS Transcripts that showed significantly increased expression after 24 hours of infection by Pseudomonas donghuensis HYS, comparing to control animals exposed to OP50. DESeq2, fold change > 2, FDR < 0.05. WBPaper00068216:HYS_vs_OP50_upregulated
Bacteria: Pseudomonas donghuensis HYS Transcripts that showed significantly decreased expression after 24 hours of infection by Pseudomonas donghuensis HYS with deletion of ferric uptake regulator (FUR), comparing to control animals exposed to HYS. DESeq2, fold change > 2, FDR < 0.05. WBPaper00068216:FUR_vs_HYS_downregulated
  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
  Transcripts that showed significantly increased expression in N2 animals exposed to fluvastatin sodium for 9 hours at L4 larva stage, comparing to N2 animals grown without fluvastatin exposure. DESeq2 FDR < 0.05 WBPaper00059604:fluvastatin_upregulated_N2
  Transcripts that showed significantly decreased expression in lbp-3 overexpression transgenic lines comparing to wild type control animals. DESeq2 fold change > 2, FDR < 0.05. WBPaper00064156:lbp-3(overexpress)_downregulated
  Transcripts that showed significantly decreased expression in pmt-2(RNAi) animals comparing to control animals iinjected with empty vector. Fold-change > 1.5, ANOVA P values < 0.05. WBPaper00055482:pmt-2(RNAi)_downregulated
  Transcripts that showed significantly decreased expression after exposure to 500uM BPA (Bisphenol A), comparing to 0.1% ethanol control group. Cuffdiff was used to compare the aligned reads between the BPA- or BPS-treated group and the control ethanol group to identify genes and gene transcripts that were differentially expressed. Multiple hypothesis testing was corrected using the q value method to estimate false discovery rate (FDR). Genes and transcripts showing differential expression or alternative splicing at P < 0.05 were selected. WBPaper00049954:BPA_downregulated
  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 that showed decreased mRNA expression in emr-1(gk119) comparing to N2. Library siggenes in R was applied to select the differentially expressed loci using the false discovery rate-based SAM method. Genes presenting a delta value > 4 were considered to be significantly altered. WBPaper00044786:emr-1(gk119)_downregulated
  Genes that are upregulated by 0.2M ethanol treatment. Differences in gene expression levels between the two groups of worms were analyzed with Cufflinks 1.0.3, using a cutoff of twofold difference and FDR corrected p < 0.05. WBPaper00041954:ethanol_upregulated
  Transcripts that showed significantly decreased expression in mafr-1(tm6082) (gain of function) animals comparing to in N2. Student's t-test. Fold Change > = 2. WBPaper00050522:mafr-1(tm6082)_downregulated
  Genes that showed decreased mRNA expression in both ahr-1(ia03) and ahr-1(ju145) comparing to in N2. Both of the ahr-1 mutants studied when compared to wild-type N2 according to the criteria of fold change > 2 or < 0.5, FDR-corrected p-value of < 0.05 and FPKM of > 0 in both samples. WBPaper00044753:ahr-1_downregulated
  Genes that showed significantly changed expression in oxidative stressed N2 animals caused by 10mM sodium arsenite (NaAsO2) comparing to in unstressed N2. R-Bioconductor package. WBPaper00049266:NaAsO2-Stress_regulated_N2
  Transcripts that showed significantly increased expression in dlk-1(km12) animals exposed to fluvastatin sodium for 9 hours at L4 larva stage, comparing to dlk-1(km12) animals grown without fluvastatin exposure. DESeq2 FDR < 0.05 WBPaper00059604:fluvastatin_upregulated_dlk-1(km12)

0 Expression Patterns

0 GO Annotation

0 Homologues

1 Locations


Feature . Primary Identifier 		Start End Strand
WBGene00197773 3572379 3572566 1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

Length
188

1 Sequence Ontology Term

Identifier Name Description
gene  

0 Strains

0 Upstream Intergenic Region