WormMine

WS295

Intermine data mining platform for C. elegans and related nematodes

Gene :

WormBase Gene ID  ? WBGene00219757 Gene Name  linc-71
Sequence Name  ? Y49F6B.18 Organism  Caenorhabditis elegans
Automated Description  Enriched in neurons based on RNA-seq studies. Is affected by kri-1 and mpk-2 based on RNA-seq studies. Is affected by Tunicamycin and Cadmium Chloride based on RNA-seq studies. Biotype  SO:0001641
Genetic Position  II :-6.24848± Length (nt)  ? 163
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1 Organism

Name Taxon Id
Caenorhabditis elegans 6239

1 Synonyms

Value
WBGene00219757

Genomics

1 Transcripts

WormMine ID Sequence Name Length (nt) Chromosome Location
Transcript:Y49F6B.18 Y49F6B.18 163   II: 3509948-3510110
 

Other

0 CDSs

0 RNAi Result

7 Allele

Public Name
gk964317
gk963801
gk963053
WBVar01695376
WBVar02046988
WBVar01236821
WBVar00102813

1 Chromosome

WormBase ID Organism Length (nt)
II Caenorhabditis elegans 15279421  

1 Chromosome Location


Feature . Primary Identifier
Start End Strand
WBGene00219757 3509948 3510110 1

2 Data Sets

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

0 Downstream Intergenic Region

7 Expression Clusters

Regulated By Treatment Description Algorithm Primary Identifier
  Neuronally enriched transcripts according to a comparison of neuronal nuclei IP samples to total nuclei using isolation of nuclei from tagged specific cell types (INTACT) technology. DESEQ2, fold change > 2 and FDR < 0.01. WBPaper00062103:neuron_enriched
  Transcripts that showed significantly increased expression in WD61[kri-1(ok1251)] comparing to in N2. N.A. WBPaper00056586:kri-1(ok1251)_upregulated
  Transcripts that showed significantly decreased expression after treated with 300uM CdCl2 from L1 to late L3 larva stage, in N2 animals injected with empty RNAi vector. DESeq2, v1.12.0, fold change > 2, FDR < 0.05 WBPaper00057068:Cadmium_downregulated
Heat shock: 35C for 1 hour. Transcripts that showed significantly decreased expression immediately after 1-day post L4 adult hermaphrodite endu-2(tm4977) animals were exposed to 35C for 1 hour. The DESeq2 (GalaxyVersion 2.11.40.6 + galaxy1) was used to determine differentiallyexpressed features from count tables of differential transcript abundances. log2FC > 1, FDR < 0.01. WBPaper00065749:Heat-Shock_downregulated_endu-2(tm4977)
Heat shock: 35C for 1 hour. Transcripts that showed significantly decreased expression immediately after 1-day post L4 adult hermaphrodite N2 animals were exposed to 35C for 1 hour. The DESeq2 (GalaxyVersion 2.11.40.6 + galaxy1) was used to determine differentiallyexpressed features from count tables of differential transcript abundances. log2FC > 1, FDR < 0.01. WBPaper00065749:Heat-Shock_downregulated_N2
  Transcripts that showed significantly increased expression after 4 hours of treatment by 50 ub per ml tunicamycin at L4 larva stage, in RtcB(null) animals. Fold change > 1.75 WBPaper00045971:tunicamycin_upregulated_RtcB(null)
  Transcripts that showed significantly increased expression in WD483[kri-1(ok1251); mpk-2(ok219)] comparing to in N2. N.A. WBPaper00056586:kri-1(ok1251);mpk-2(ok219)_upregulated

0 Expression Patterns

0 GO Annotation

0 Homologues

1 Locations


Feature . Primary Identifier
Start End Strand
WBGene00219757 3509948 3510110 1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

Length
163

1 Sequence Ontology Term