WormMine

WSWS298

An integrated data resource for C. elegans and related nematodes

Gene :

WormBase Gene ID  ? WBGene00201980 Gene Name  K08A8.28
Sequence Name  ? K08A8.28 Organism  Caenorhabditis elegans
Automated Description  Is affected by cep-1; set-2; and ikb-1 based on RNA-seq studies. Biotype  SO:0001263
Genetic Position  :± Length (nt)  ? 142
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1 Organism

Name Taxon Id
Caenorhabditis elegans 6239

1 Synonyms

Value
WBGene00201980

Genomics

1 Transcripts

WormMine ID Sequence Name Length (nt) Chromosome Location
Transcript:K08A8.28 K08A8.28 142   X: 7456923-7457064
 

Other

0 CDSs

0 RNAi Result

12 Allele

Public Name
gk964260
gk963873
gk963874
gk964088
gk964087
gk964005
gk964003
WBVar02121350
gk404921
WBVar01550500
ttTi44122
WBVar01526854

1 Chromosome

WormBase ID Organism Length (nt)
X Caenorhabditis elegans 17718942  

1 Chromosome Location


Feature . Primary Identifier 		Start End Strand
WBGene00201980 7456923 7457064 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_7457065..7457247   183 X: 7457065-7457247 Caenorhabditis elegans

3 Expression Clusters

Regulated By Treatment Description Algorithm Primary Identifier
  Transcripts that showed significantly increased expression in set-2(zr2012) 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(zr2012)_upregulated
  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 ikb-1(nr2027) animals at L1 larva stage, comparing to in N2 animals. Differentially expressed genes between wild type and knockouts were explored using DESeq2 R package (v.1.20.0) considering a threshold of adjusted p value < 0.01. WBPaper00060445:ikb-1(nr2027)_upregulated_L1

0 Expression Patterns

0 GO Annotation

0 Homologues

1 Locations


Feature . Primary Identifier 		Start End Strand
WBGene00201980 7456923 7457064 1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

Length
142

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_chrX_7456698..7456922   225 X: 7456698-7456922 Caenorhabditis elegans