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)

7 rows where transcript_id = 29793323

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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
166625676 GT-AG 0 2.397745442017254e-05 84 rna-XM_031521541.1 29793323 2 52950157 52950240 Punica granatum 22663 AAG|GTTTTGTTGC...GAGTTTTTATAG/TGAGTTTTTATA...ATTAG|GTA 0 1 69.388
166625677 GT-AG 0 1.000000099473604e-05 96 rna-XM_031521541.1 29793323 3 52949828 52949923 Punica granatum 22663 GAG|GTCCGGAACT...TTATCCTTTTCT/TTTGATGTTATC...ATCAG|GTC 2 1 72.579
166625678 GT-AG 0 4.5409123286755376e-05 733 rna-XM_031521541.1 29793323 4 52948950 52949682 Punica granatum 22663 CCG|GTATGTGCAG...GAAGACTTGACA/TTTCCACTGATT...GGTAG|GTT 0 1 74.565
166625679 GT-AG 0 1.000000099473604e-05 78 rna-XM_031521541.1 29793323 5 52948673 52948750 Punica granatum 22663 TTG|GTGAGCATTA...AACTTCTTATTG/CAACTTCTTATT...ACTAG|GTG 1 1 77.291
166625680 GT-AG 0 1.000000099473604e-05 122 rna-XM_031521541.1 29793323 6 52948215 52948336 Punica granatum 22663 CAG|GTAGTAGGAT...AGTGTCTTATTC/CAGTGTCTTATT...GGCAG|GTG 1 1 81.893
166625681 GT-AG 0 1.000000099473604e-05 1167 rna-XM_031521541.1 29793323 7 52946347 52947513 Punica granatum 22663 CAG|GTAGTAATCT...CCCCCTTTATCG/TATCGTCTCATC...TGCAG|TCT 0 1 91.494
166641056 GT-AG 0 9.90954380545558e-05 176 rna-XM_031521541.1 29793323 1 52955280 52955455 Punica granatum 22663 GAG|GTACGTCTCT...GGGATTTTGATC/GGGATTTTGATC...AGCAG|GGC   0 2.657

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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]);