introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

6 rows where transcript_id = 34091317

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
190849911 GT-AG 0 1.000000099473604e-05 64987 rna-XM_013260300.1 34091317 1 746204 811190 Stomoxys calcitrans 35570 GAG|GTGAATTAAA...AACTTTTTGATA/AACTTTTTGATA...TCCAG|GCC 0 1 8.265
190849912 GT-AG 0 6.382524136110373e-05 1750 rna-XM_013260300.1 34091317 2 743393 745142 Stomoxys calcitrans 35570 ATA|GTAAGTATGT...AACATTTTAATC/AACATTTTAATC...AATAG|CTT 2 1 49.437
190849913 GT-AG 0 0.0002036653788066 67 rna-XM_013260300.1 34091317 3 743171 743237 Stomoxys calcitrans 35570 TAA|GTAAGTTGTC...ATATCTTTAAAT/CTTTATTTAATA...TGCAG|TGG 1 1 55.452
190849914 GT-AG 0 4.799313479585563e-05 66 rna-XM_013260300.1 34091317 4 742936 743001 Stomoxys calcitrans 35570 GAG|GTATGTCAAG...TTATGTTTAATA/TTATGTTTAATA...TATAG|GTG 2 1 62.01
190849915 GT-AG 0 1.000000099473604e-05 1119 rna-XM_013260300.1 34091317 5 741744 742862 Stomoxys calcitrans 35570 GAG|GTAAGTAGTA...GACTTCTTAATG/TTTATAATCATA...TTCAG|TGT 0 1 64.843
190849916 GT-AG 0 2.4336767362199013e-05 2543 rna-XM_013260300.1 34091317 6 738813 741355 Stomoxys calcitrans 35570 ATA|GTAAGTATAA...CTTTTTTTATAC/GCTTTTTTTATA...TCCAG|TTC 1 1 79.899

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);