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)

8 rows where transcript_id = 13349315

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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
71011215 GT-AG 0 0.001184262244994 115 mRNA_338 13349315 1 26331855 26331969 Entomophaga maimaiga 42810 GCG|GTAAGCTTTT...AAAATTTTGATA/AAAATTTTGATA...TCTAG|GAG 0 1 4.255
71011216 GT-AG 0 1.000000099473604e-05 55 mRNA_338 13349315 2 26332079 26332133 Entomophaga maimaiga 42810 ATG|GTAAGTGAAG...TTTTTCTTATCA/TTTTTTCTTATC...TTTAG|ATG 1 1 8.121
71011217 GT-AG 0 5.21044366800444e-05 96 mRNA_338 13349315 3 26332208 26332303 Entomophaga maimaiga 42810 ATG|GTAACGTAGC...ATACGTTTAATG/TGGAGGCTAATT...TAAAG|GGG 0 1 10.745
71011218 GT-AG 0 7.50535746193179e-05 37 mRNA_338 13349315 4 26332461 26332497 Entomophaga maimaiga 42810 ATC|GTAAGTGCTT...GATTCTTTAACA/TTTTGTTTGATT...TGTAG|CTC 1 1 16.312
71011219 GT-AG 0 1.3038139458254995e-05 32 mRNA_338 13349315 5 26332642 26332673 Entomophaga maimaiga 42810 CAA|GTAATCAGGT...AAAACACTAATA/AAAACACTAATA...TCAAG|ATA 1 1 21.418
71011220 GT-AG 0 0.0280934325834768 34 mRNA_338 13349315 6 26332907 26332940 Entomophaga maimaiga 42810 AAG|GTAACCCTTT...CTTTTATTGACT/CTTTTATTGACT...TTCAG|TCC 0 1 29.681
71011221 GT-AG 0 0.0019878390439484 32 mRNA_338 13349315 7 26333090 26333121 Entomophaga maimaiga 42810 GCG|GTATGTTTTC...TTCGCACTAAAA/AACTTTCGCACT...CTTAG|GGC 2 1 34.965
71011222 GT-AG 0 1.000000099473604e-05 36 mRNA_338 13349315 8 26333271 26333306 Entomophaga maimaiga 42810 CAG|GTAATGCTAA...TAAACTCTAATA/TAAACTCTAATA...AATAG|GCG 1 1 40.248

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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]);