LRIM1 deletion-mutagenesis enhancer activity
Influence of genetic polymorphism on transcriptional enhancer activity in the malaria vector Anopheles coluzziiTwo natural LRIM1 alleles were shortened symmetrically from both ends to produce 100%, 50%, and 25% derivatives, then tested in the same episomal dual-luciferase reporter system. The panel resolves allele-specific positive and negative regulatory modules within the LRIM1 interval.
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.
Perturbation & assay details
Basal / Untreated; 24 h after reporter transfection
Deletion derivatives retained 50% or 25% of the initial enhancer length by reducing equally from both ends. The study reports n = 12 per construct and Kruskal–Wallis/post-hoc compact-letter groups; sequence-derived variable-site counts are described in the paper but are not re-calculated here.
Episomal dual-luciferase deletion assay using pGL-Gateway-DSCP firefly reporter plus pRL-ubi-63E Renilla control; the molecular perturbation is symmetric end deletion of a natural enhancer allele and the readout is normalized RLU.
Processed data
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Filters apply to this table only. The CSV download contains the complete processed table; filtered rows are available through the API.
Column dictionary · 23 definitions
- element_id
- Enhancer locus tested; all rows are LRIM1.
- proximal_gene
- Nearest annotated gene used to name the locus.
- gene_id
- Gene identifier from the paper.
- chromosome
- Chromosome arm in PEST AgamP4 coordinates.
- coordinate_start
- 1-based inclusive initial LRIM1 interval start.
- coordinate_end
- 1-based inclusive initial LRIM1 interval end.
- interval_length_bp
- Inclusive initial LRIM1 interval length.
- allele_label
- Natural LRIM1 allele background used for the derivative.
- source_colony
- Laboratory colony source of the allele.
- colony_origin
- Colony initiation population/year reported in Methods.
- construct_type
- Deletion-mutagenesis construct type.
- deletion_fraction
- Remaining fraction of the initial enhancer interval (1.0, 0.5, or 0.25).
- deletion_description
- How the derivative was shortened, following the paper’s symmetric end deletions.
- source_fasta_file
- Supplementary File S1 FASTA filename retained in raw_data.
- source_fasta_record
- Exact short-fragment FASTA record used for the sequence column.
- sequence_5to3
- Ungapped nucleotide sequence reconstructed from the aligned derivative record.
- sequence_length_bp
- Length of the ungapped derivative sequence.
- sequence_md5
- MD5 checksum of the ungapped derivative sequence.
- relative_luciferase_activity_median_approx
- Approximate Figure 6A median of DLX-normalized luciferase activity; digitized from the plotted median bar.
- n_measurements
- Figure 6A reports n = 12 wells for every construct.
- statistical_group
- Compact-letter group printed above the Figure 6A distribution.
- source_figure
- Publication figure supporting the activity value.
- qc_pass
- All six source-tested deletion constructs retained with n = 12; activity differences are the biological outcome of interest.
Quality control
Retained all six source-tested constructs with n = 12. No technical outlier filter was reported; low or high activity was retained because the experiment is specifically a functional deletion dissection.
Curation notes
Short derivative records come from the separate LRIM1_Alleles-short-fragments.fas file inside Supplementary Dataset 1. The record names encode the derivative, while Figure 6 labels them by allele and percent length; original names are retained for traceability.