Use of the ND evidence code for Gene Ontology (GO) terms.
Manual transfer of experimentally-verified manual GO annotation data to orthologs by curator judgment of sequence similarity.
Augmented annotation of the Schizosaccharomyces pombe genome reveals additional genes required for growth and viability
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tam10 identified as novel gene with transcripts altered during meiosis
"We refer to the novel protein-coding genes with no apparent induction in meiosis as new1–new25 , and the 14 genes with t ranscripts a ltered in m eiosis as tam1–tam14"
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Novel genes found through comparative genomics had very limited conservation
"The vast majority of conserved sequences (99.9%) were found to be within existing genes"
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tam10 mRNA levels fluctuate significantly during synchronized meiotic time course
"Fourteen transcripts were differentially expressed during meiosis. Using 5′ and 3′ RACE assays, we established the complete gene architecture of 33 predicted genes"
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Most novel genes lacked conservation beyond closely related species
"an additional 59 hits to six frame translations of the genomes of the most recently diverged species ( S. japonicus , S. cryophilus , and S. octosporus ; Figure 1 ) were identified in the fission yeast intergenic regions"
Native RNA sequencing in fission yeast reveals frequent alternative splicing isoforms
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tam10 (SPBC14C8.19) is referred to in this study by the descriptor "nucleolar
RNA-binding protein also implicated in mRNA processing"; this descriptor is
a figure-legend label citing the pre-existing PomBase annotation, not an
independent experimental determination of localization or RNA binding in
this paper.
"a nucleolar RNA-binding protein also implicated in mRNA processing (tam10, SPBC14C8.19), with ∼18% of the reads mapping to the IR isoform"
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Direct (native) RNA sequencing detected an intron-retained (IR) isoform of
tam10 accounting for ~18% of reads, and the IR isoform showed a significant
tendency toward a longer poly(A) tail than the reference isoform. This is
transcript-level evidence for alternative splicing of the tam10 locus, not
evidence for protein molecular function or localization.
"In both cases poly(A) length showed a significant tendency to be longer in the IR isoform"
Falcon deep research report for tam10 (G2TRQ9, SPBC14C8.19)
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Falcon found tam10 remains sparsely characterized; the only directly
tam10-specific experimental evidence retrieved was the Montañés et al. 2022
native RNA sequencing study, which labels tam10 as a nucleolar RNA-binding
protein implicated in mRNA processing.
"The only directly tam10-specific experimental evidence retrieved here comes from isoform-resolved native RNA sequencing work, which describes tam10 as a **nucleolar RNA-binding protein implicated in mRNA processing**"
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Falcon could not retrieve any tam10-specific or SMAP/PF15477 domain-family
primary literature, so no molecular mechanism, enzymatic activity, substrate,
or pathway membership can be asserted for tam10 from this research.
"no additional tam10/SPBC14C8.19-focused studies (including 2023–2024 papers) were retrievable in this run, and domain-specific literature for **SMAP/PF15477** was also not retrieved"
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Falcon explicitly states that no evidence-supported molecular mechanism for
the SMAP domain in S. pombe tam10 can be asserted.
"No evidence-supported **molecular mechanism** for the SMAP domain in *S. pombe* tam10 can be asserted here"
Deep research report for tam10 gene
tam10 vs KNOP1 Homology Analysis
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tam10 shows only 16.7% sequence identity to human KNOP1, well below orthology thresholds
"**16.7% sequence identity** (28 matches over 168 aa tam10 length)"
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The ISO annotation to KNOP1 appears incorrect based on sequence analysis
"The ISO annotation linking tam10 to KNOP1 appears to be **INCORRECT** or based on:"
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tam10 and KNOP1 share compositional but not evolutionary similarity (both lysine-rich, similar basic residue composition)
"Both proteins are lysine-rich"
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Analysis supports tam10 classification as sequence orphan with no orthologs
"**The deep research's characterization of tam10 having "no orthologs" is supported by our analysis.**"
OpenScientist evaluation of tam10 RNA binding annotation
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OpenScientist found no credible support for tam10 RNA-binding activity.
"Through systematic examination of ortholog annotations, domain architecture, mRNA interactome datasets, structural predictions, and primary literature, we found no credible evidence supporting RNA binding activity for tam10 or its direct orthologs."