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 = 29793349

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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
166626185 GT-AG 0 1.000000099473604e-05 204 rna-XM_031530875.1 29793349 1 49329525 49329728 Punica granatum 22663 CCG|GTAGGAACCA...TTGGCCTTGTTT/CCTTGTTTGACT...TCCAG|GAG 0 1 3.569
166626186 GT-AG 0 0.0009048474838565 84 rna-XM_031530875.1 29793349 2 49326762 49326845 Punica granatum 22663 GAG|GTACTTTGAA...TGCTCTTTATTT/CTTTATTTGAAC...TTCAG|CTC 0 1 63.704
166626187 GT-AG 0 1.000000099473604e-05 632 rna-XM_031530875.1 29793349 3 49326026 49326657 Punica granatum 22663 CAG|GTACGAAACC...CTTTTTTTAATG/CTTTTTTTAATG...ATCAG|CGC 2 1 66.038
166626188 GT-AG 0 1.4623880591212312e-05 113 rna-XM_031530875.1 29793349 4 49325843 49325955 Punica granatum 22663 CAG|GTTATCTATC...TAGCTTTTGACT/TAGCTTTTGACT...TGCAG|CTT 0 1 67.609
166626189 GT-AG 0 1.000000099473604e-05 153 rna-XM_031530875.1 29793349 5 49324919 49325071 Punica granatum 22663 AAG|GTTAGTGCGT...TCTACTATAACT/TCTACTATAACT...TGCAG|GTG 0 1 84.916
166626190 GT-AG 0 8.851303811790942e-05 83 rna-XM_031530875.1 29793349 6 49324633 49324715 Punica granatum 22663 AAG|GTATGAACCG...ACTTTTTTAATT/TTTAATTTCATT...AGCAG|TGT 2 1 89.473
166626191 GT-AG 0 1.400526132967495 745 rna-XM_031530875.1 29793349 7 49323764 49324508 Punica granatum 22663 GAG|GTATCTCACT...CATTTCTTAACT/CATTTCTTAACT...TTCAG|GGC 0 1 92.256
166626192 GT-AG 0 1.000000099473604e-05 326 rna-XM_031530875.1 29793349 8 49323231 49323556 Punica granatum 22663 AAG|GTAATGCTCT...ATACCATTAATC/AATGCCCTCATG...TGCAG|GAA 0 1 96.902

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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]);