Experiment / E3UBHZIVC5' UTR / Translation Efficiency MPRA (MPTA)

25–100-nt variable-length eGFP 5′-UTR library

Human 5′ UTR design and variant effect prediction from a massively parallel translation assay

A single polysome-profiling experiment tested synthetic random, human, control, and uAUG/no-uAUG sequence subsets with 5′-UTR lengths from 25 to 100 nt in a constant eGFP context. Rows with at least 10 total reads and valid sequence/MRL measurements are retained.

Download processed table (CSV)Raw source data API documentation

Processed tables are specific to each experiment. Column names, units, measurements, and table structure are not standardized across the database. Check this experiment’s column definitions and quality-control notes before comparing or combining data.

Organism: Human
Taxonomy ID: NCBITaxon:9606
Biosample: CVCL:0063
Reference genome: Not reported / not applicable
Design focus: Synthetic / Motif-focused
Region of interest: Not reported / not applicable

Perturbation & assay details

Unmodified uridine (U) IVT mRNA

HEK293T cells were transfected with in-vitro-transcribed reporter mRNA; cells were harvested 12 h later, polysome fractions were collected, fraction-associated sequences were quantified by barcode/NGS, and Mean Ribosome Load (MRL) was computed from relative fraction distributions. The reporter used a defined leader and constant eGFP CDS/3′ context; the variable insert spans 25–100 nt. GEO sample GSM4084997 is the single variable-length run.

Processed data

50 rows per page. Click a cell to inspect its full value.

Visible columns (7 of 7)

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Page 1 · 50 rows · More results available

Filters apply to this table only. The CSV download contains the complete processed table; filtered rows are available through the API.

Column dictionary · 7 definitions

element_id: Raw GEO row identifier.
utr_sequence: Uppercase tested variable-length 5′-UTR insert sequence.
utr_length: Observed length of the tested insert in nucleotides.
sequence_set: GEO subset label: random, human, controls, with_uaugs, or no_uaugs.
uaug_count: Number of ATG motifs in the insert; reading frame is not inferred.
total_reads: GEO total_reads coverage count used for the >=10 QC filter.
mrl: Published observed mean ribosome load (MRL).

Quality control

Following the authors’ varying-length processing, required valid A/C/G/T sequence, declared length equal to observed sequence length within 25–100 nt, finite MRL, and total_reads >= 10. This retained 102,214 rows across all subsets, including 83,919 random and 15,555 human rows.

Curation notes

All five sequence sets were retained after the >=10 total_reads filter; the random and human counts match the authors’ released notebook outputs. utr_sequence is already the variable-length insert, so no reporter suffix was removed.

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