WormMine

WSWS298

An integrated data resource for C. elegans and related nematodes

Gene :

WormBase Gene ID  ? WBGene00202502 Gene Name  F41B5.12
Sequence Name  ? F41B5.12 Organism  Caenorhabditis elegans
Automated Description  Is affected by pabp-2; ubr-5; and dve-1 based on RNA-seq studies. Is affected by Ketamine based on RNA-seq studies. Is predicted to encode a protein with the following domains: TRA-1 regulated protein R03H10.4 and TRA-1 regulated. Biotype  SO:0001217
Genetic Position  :± Length (nt)  ? 888
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1 Organism

Name Taxon Id
Caenorhabditis elegans 6239

1 Synonyms

Value
WBGene00202502

Genomics

2 Transcripts

WormMine ID Sequence Name Length (nt) Chromosome Location
Transcript:F41B5.12a.1 F41B5.12a.1 611   V: 2260960-2261847
Transcript:F41B5.12b.1 F41B5.12b.1 435   V: 2261223-2261847
 

Other

2 CDSs

WormMine ID Sequence Name Length (nt) Chromosome Location
CDS:F41B5.12b F41B5.12b 435   V: 2261223-2261256
CDS:F41B5.12a F41B5.12a 552   V: 2261019-2261132

0 RNAi Result

55 Allele

Public Name
gk963301
WBVar01585079
WBVar01585080
WBVar01585081
WBVar01585082
WBVar01585083
WBVar01585084
WBVar01585085
WBVar01585086
WBVar01585087
WBVar01585088
WBVar01585089
WBVar01585076
WBVar01585077
WBVar01585078
gk963591
gk963553
gk964259
gk963850
gk963027
gk963604
WBVar02121241
WBVar02023209
WBVar00204254
WBVar00204255
WBVar00204258
WBVar00204259
WBVar00204256
WBVar00204257
WBVar00204263

1 Chromosome

WormBase ID Organism Length (nt)
V Caenorhabditis elegans 20924180  

1 Chromosome Location


Feature . Primary Identifier 		Start End Strand
WBGene00202502 2260960 2261847 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_chrV_2261848..2262488   641 V: 2261848-2262488 Caenorhabditis elegans

5 Expression Clusters

Regulated By Treatment Description Algorithm Primary Identifier
  Transcripts that showed signifcantly increased expression in ubr-5(miy31) injected with empty vector comparing to in N2 animals injected with empty vector at L1 larva stage and collected at L4 larva stage. FDR < 0.05, fold change > 2 WBPaper00067368:ubr-5(miy31)_upregulated_N2
  Transcripts that showed significantly increased expression in eat-2(ad465);dve-1(RNAi) animals comparing to eat-2(ad465) animals injected with empty vector. fold change > 2, FDR < 0.01 WBPaper00067391:dve-1(RNAi)_upregulated_eat-2(ad465)
  Transcipts that showed significantly increased expression in old (days 24, 14, and 9 of adulthood) octr-1(ok371) comparing to in N2 at 25C. DESeq2 v1.31.16, fold change > 2, FDR < 0.05 WBPaper00068082:octr-1(ok371)_upregulated_old_25C
  Transcripts that showed signifcantly decreased expression in ubr-5(miy31);pabp-2(RNAi) animals comparing to in ubr-5(miy31) animals injected with empty vector at L1 larva stage and collected at L4 larva stage. FDR < 0.05, fold change > 2 WBPaper00067368:pabp-2(RNAi)_downregulated_ubr-5(miy31)
  Transcripts that showed significantly increased expression in animals exposed to 2.5mM ketamine since L1 larva stage. DESeq2 (1.20.0), fold change > 2, p-value < 0.05. WBPaper00064788:ketamine_upregulated

1 Expression Patterns

Remark Reporter Gene Primary Identifier Pattern Subcellular Localization
    Expr1150810 Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015  

0 GO Annotation

0 Homologues

1 Locations


Feature . Primary Identifier 		Start End Strand
WBGene00202502 2260960 2261847 1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

Length
888

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_chrV_2259928..2260959   1032 V: 2259928-2260959 Caenorhabditis elegans