| Measurement | Value(s) | System/assay | Interpretation | Source (with year/DOI/URL if available) |
|---|---:|---|---|---|
| TRAMP oligo(A) tail-length distribution peak | ~4–5 adenosines | Mechanistic/biochemical synthesis of yeast TRAMP literature | Supports the current model that TRAMP usually adds short oligoadenylate tails that function as decay-promoting marks rather than long stabilizing poly(A) tails | Schmidt & Butler 2013, WIREs RNA, doi:10.1002/wrna.1155, https://doi.org/10.1002/wrna.1155 (pqac-00000044) |
| Mtr4 suppression of further Trf4 extension | Suppresses extension after ~3–5 adenosines | Mechanistic/biochemical synthesis of yeast TRAMP literature | Indicates that Mtr4 helps limit tail length and coordinates oligoadenylation with exosome targeting/unwinding | Schmidt & Butler 2013, WIREs RNA, doi:10.1002/wrna.1155, https://doi.org/10.1002/wrna.1155 (pqac-00000044) |
| Trf4-generated poly(A) tail length without exosome | Average ~60–70 nt after 90 min | In vitro uncoupled polyadenylation assay with Trf4-TAP, exosome absent | Shows that in the absence of downstream degradation/handoff, Trf4 complexes can elaborate much longer tails than the short tails generally associated with productive surveillance | Vaňáčová et al. 2005, PLoS Biology, doi:10.1371/journal.pbio.0030189, https://doi.org/10.1371/journal.pbio.0030189 (pqac-00000011) |
| WT coding-sequence poly(A) tail length | ~31.5 nt | Oxford Nanopore direct RNA sequencing | Provides recent transcriptome-wide quantitative context for nuclear RNA tail measurements in yeast backgrounds used to probe TRAMP/exosome function | DeMario 2023, snoRNA processing study/thesis (no DOI available in gathered evidence) (pqac-00000035, pqac-00000049) |
| rrp6Δ coding-sequence poly(A) tail length | ~35.2 nt | Oxford Nanopore direct RNA sequencing | RRP6 loss is associated with longer average CDS poly(A) tails, consistent with nuclear exosome/Rrp6 contributions to tail surveillance/turnover | DeMario 2023, snoRNA processing study/thesis (no DOI available in gathered evidence) (pqac-00000035, pqac-00000049) |
| AIR2 deletion effect vs rrp6Δ | Average fold change 1.24 ± 0.88 | 3′-end / polyadenylation peak analysis in mutant backgrounds | Supports a stronger role for Air2 than Air1 in TRAMP targeting of some ncRNA/snoRNA substrates | DeMario 2023, snoRNA processing study/thesis (no DOI available in gathered evidence) (pqac-00000035, pqac-00000049) |
| rrp6Δ air1Δ effect vs rrp6Δ | Average fold change 1.12 ± 0.842 | 3′-end / polyadenylation peak analysis in mutant backgrounds | Suggests AIR1 loss alone has a comparatively modest global effect on these polyadenylation patterns | DeMario 2023, snoRNA processing study/thesis (no DOI available in gathered evidence) (pqac-00000046) |
| rrp6Δ air1Δ air2Δ effect vs rrp6Δ | 3,289/5,210 peaks increased; average fold change 1.44 ± 1.45 | 3′-end / polyadenylation peak analysis in triple-mutant background | Demonstrates broad rewiring of RNA 3′-end polyadenylation when both Air proteins are lost on an rrp6Δ background; consistent with widespread TRAMP targeting defects | DeMario 2023, snoRNA processing study/thesis (no DOI available in gathered evidence) (pqac-00000035, pqac-00000046, pqac-00000049) |
| Stabilized downstream snoRNA-associated peaks in triple mutant | ~450 nt downstream of snR34 and snR10; ~200 nt downstream of snR65; ~100 nt downstream of snR71 | Nanopore/3′-end mapping of snoRNA loci | Indicates accumulation of unprocessed pre-snoRNA species and supports a role for Air2/TRAMP in late snoRNA maturation/surveillance | DeMario 2023, snoRNA processing study/thesis (no DOI available in gathered evidence) (pqac-00000046, pqac-00000049) |
| rRNA polyadenylation frequency in WT | <0.1% of 25S-related RNA polyadenylated | Background quantitative synthesis from yeast rRNA polyadenylation studies | Shows that polyadenylated rRNA is normally rare in wild-type yeast | Gibson 2011 summary of prior yeast studies (no journal DOI in gathered evidence) (pqac-00000047) |
| rRNA polyadenylation increase in rrp6Δ | ~100-fold increase | Background quantitative synthesis from yeast rRNA polyadenylation studies | Supports a major role for Rrp6 in clearing or trimming polyadenylated rRNA surveillance intermediates | Gibson 2011 summary of prior yeast studies (no journal DOI in gathered evidence) (pqac-00000047) |
| Relative abundance of polyadenylated rRNA vs poly(A)+ mRNA | ~1/20 | Background quantitative synthesis from yeast rRNA polyadenylation studies | Indicates that although rare, polyadenylated rRNA is a measurable surveillance-associated RNA class | Gibson 2011 summary of prior yeast studies (no journal DOI in gathered evidence) (pqac-00000047) |
| Air2 binding affinity for oligo(A) RNA | Lower micromolar Kd for oligo(A)15 | RNA-binding assay summarized in review | Supports the idea that Air2 is an RNA-binding specificity factor for TRAMP and preferentially recognizes RNA rather than DNA | Wong et al. 2015, doi:10.2147/RRBC.S58509, https://doi.org/10.2147/RRBC.S58509 (pqac-00000014) |
| Trf4 short-tail output in one study | ~3–4 adenosines | Biochemical study summarized in review | Consistent with short-tail surveillance model and with Mtr4-mediated control of tail length | Gibson 2011 summary of prior yeast studies (no journal DOI in gathered evidence) (pqac-00000008, pqac-00000055) |


*Table: This table compiles quantitative measurements relevant to yeast Trf4/TRAMP function, emphasizing 2023–2024 evidence where available and supplementing with foundational earlier data. It highlights tail-length distributions, mutant-dependent polyadenylation changes, and binding measurements that anchor mechanistic interpretation.*