Enhancer orientation tests in dual-luciferase reporters
Influence of genetic polymorphism on transcriptional enhancer activity in the malaria vector Anopheles coluzziiSelected KLF, AP, and LRIM1 enhancer alleles were recloned in both arbitrary reporter orientations and assayed in A. coluzzii 4a3A cells. The source reports no detectable orientation effect for KLF/AP and a weak LRIM1 Fd05_#1 difference.
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
All conditions were run at n = 12. KLF and AP showed no detectable orientation effect; the paper reports p = 0.042 for the LRIM1 Fd05_#1 comparison but characterizes it as weak.
Episomal dual-luciferase orientation assay using pGL-Gateway-DSCP firefly reporter plus pRL-ubi-63E Renilla control; orientation A/B is a construct label, with normalized RLU output rather than barcode counts.
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.
- 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 candidate interval start.
- coordinate_end
- 1-based inclusive candidate interval end.
- interval_length_bp
- Inclusive candidate interval length.
- allele_label
- Allele label shown in Figure 5; AP Ng labels are preserved even where S1 uses an alternate clone header.
- source_colony
- Laboratory colony source of the enhancer haplotype.
- colony_origin
- Colony initiation population/year reported in Methods.
- construct_type
- Reporter construct design tested in this panel.
- orientation
- Arbitrary reporter-insert orientation A or B; these labels are not genomic plus/minus strands.
- source_fasta_file
- Supplementary File S1 FASTA filename retained in raw_data.
- source_fasta_record
- Exact S1 record used for the sequence column.
- sequence_5to3
- Ungapped nucleotide sequence reconstructed from the aligned FASTA record.
- sequence_length_bp
- Length of the ungapped sequence.
- sequence_md5
- MD5 checksum of the ungapped sequence.
- relative_luciferase_activity_median_approx
- Approximate Figure 5 median of DLX-normalized luciferase activity; digitized from the plotted median bar.
- n_measurements
- Figure 5 reports n = 12 wells for every orientation condition.
- statistical_group
- Compact-letter group printed above the Figure 5 distribution.
- p_value_for_orientation_comparison
- Only the paper-reported LRIM1 Fd05_#1 orientation comparison p-value is populated; blank means no pairwise p-value was stated.
- source_figure
- Publication figure supporting the activity value.
- qc_pass
- All source-tested orientations retained with n = 12; no paper-reported technical exclusions.
Quality control
Retained all 12 source-tested orientation conditions with n = 12. The reported weak p = 0.042 comparison is retained as a result, not used as an exclusion criterion.
Curation notes
Figure 5 uses AP labels Ng_#2 and Ng_#4, while Supplementary File S1 contains corresponding APT2_Ng1/Apt2_ECO1_Ng1 and Ng4 records; this source-label mismatch is preserved in allele_label/source_fasta_record rather than silently renamed.