WormMine

WS295

Intermine data mining platform for C. elegans and related nematodes

Gene :

WormBase Gene ID  ? WBGene00005568 Gene Name  sri-56
Sequence Name  ? T10D4.2 Organism  Caenorhabditis elegans
Automated Description  Enriched in ADAL; ASK; and ASKL based on single-cell RNA-seq studies. Is affected by several genes including clk-1; hlh-26; and ilc-17.1 based on microarray and RNA-seq studies. Biotype  SO:0000336
Genetic Position  II :-8.33797 ±0.01825 Length (nt)  ? 1185
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1 Organism

Name Taxon Id
Caenorhabditis elegans 6239

1 Synonyms

Value
WBGene00005568

Genomics

0 Transcripts

 

Other

0 CDSs

0 RNAi Result

28 Allele

Public Name
gk964317
gk963801
gk962754
gk963671
WBVar00246208
WBVar00102297
gk137698
WBVar00102296
gk137697
gk137699
WBVar00168617
WBVar00168618
WBVar01235195
WBVar01790832
gk459285
gk765174
gk507258
gk782177
gk473529
gk663086
gk561103
gk686551
gk528660
gk525064
WBVar00547843
gk905326
gk372642
gk510104

1 Chromosome

WormBase ID Organism Length (nt)
II Caenorhabditis elegans 15279421  

1 Chromosome Location


Feature . Primary Identifier
Start End Strand
WBGene00005568 3134099 3135283 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_chrII_3135284..3135580   297 II: 3135284-3135580 Caenorhabditis elegans

12 Expression Clusters

Regulated By Treatment Description Algorithm Primary Identifier
Osmotic stress Transcripts that showed significantly altered expression with 500 mM salt (NaCl) vs 100 mM salt when no food was present DESeq(version 1.10.1), FDR < 0.05. WBPaper00050726:OsmoticStress_regulated_NoFood
  Transcripts depleted in purified oocyte P bodies comparing to in whole oocytes. DESeq2, FDR < 0.05, fold change > 2. WBPaper00065975:P-body_vs_oocyte_depleted
  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
  Transcripts that showed significantly increased 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)_upregulated
  Up-regulated genes (fold change > 1.5) in two CoQ-deficient clk-1 mutant strains (e2519, qm30) compared to wild types N2. Fold-changes of intensities were calculated from the arithmetic mean of gene expression values between experimental and corresponding control group. Fold change >= 1.5 was used as cut-off. WBPaper00045774:clk-1_upregulated
  Genes found to be regulated by low-copy overexpression of sir-2.1 with p < 0.014. N.A. WBPaper00026929:sir-2.1_overexpression_regulated
  Transcripts that showed significantly increased expression in daf-2(e1370) neurons comparing to in N2 neurons at day 8adult stage. DESeq2, FDR < 0.05, fold change > 2. WBPaper00066978:daf-2(e1370)_upregulated_neuron
  Transcripts that showed significantly increased expression in daf-16(mu86);daf-2(e1370) neurons comparing to in daf-2(e1370) neurons at day 8adult stage. DESeq2, FDR < 0.05, fold change > 2. WBPaper00066978:daf-16(mu86)_upregulated_neuron
  Transcripts that showed significantly increased expression in hlh-26(ok1453) animals exposed to E. faecium for 8 hours, comparing to N2 animals exposed to E. faecium for 8 hours. Fold change > 2. WBPaper00062585:hlh-26(ok1453)_upregulated_E.faecium
  Transcripts enriched in ASK according to single cell RNAseq. Genes that pass the Bonferroni threshold for multiple comparisons (q < 0.05) are significantly enriched. WBPaper00061651:ASK_enriched
  Single-cell RNA-Seq cell group 93_0 expressed in neuron. scVI 0.6.0 WBPaper00065841:93_0
  Single-cell RNA-Seq cell group 63_0 expressed in neuron. scVI 0.6.0 WBPaper00065841:63_0

0 Expression Patterns

0 GO Annotation

0 Homologues

1 Locations


Feature . Primary Identifier
Start End Strand
WBGene00005568 3134099 3135283 1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

Length
1185

1 Sequence Ontology Term