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 = 1565110

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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
8696242 GT-AG 0 0.001915800388412 180 rna-XM_020239502.1 1565110 2 23311431 23311610 Ananas comosus 4615 TCG|GTACGTCTTT...TTGATCTTAAAA/CATTAGTTTACA...GGCAG|TTA 1 1 22.276
8696243 GT-AG 0 1.000000099473604e-05 109 rna-XM_020239502.1 1565110 3 23311690 23311798 Ananas comosus 4615 CAG|GTGATGTAAG...TTTGTATTAGTA/TAGTAGTTAATA...AGCAG|ATT 2 1 24.391
8696244 GT-AG 0 1.000000099473604e-05 255 rna-XM_020239502.1 1565110 4 23311867 23312121 Ananas comosus 4615 ATG|GTAGGTCATC...TCAATCTGAAAT/ATTGGGTTCAAT...TATAG|GAT 1 1 26.212
8696245 GT-AG 0 3.956237908150499e-05 486 rna-XM_020239502.1 1565110 5 23312273 23312758 Ananas comosus 4615 AAG|GTTTGTTCTG...TACATTTTATTT/AAGTTTCTGATC...TGTAG|GGT 2 1 30.254
8696246 GT-AG 0 2.0321763005409814e-05 388 rna-XM_020239502.1 1565110 6 23313460 23313847 Ananas comosus 4615 CAG|GTAAGCTACA...TCTTTCTTCATC/TCTTTCTTCATC...CTTAG|GTA 1 1 49.023
8696247 GT-AG 0 1.000000099473604e-05 144 rna-XM_020239502.1 1565110 7 23314019 23314162 Ananas comosus 4615 ATG|GTAAGGTTGT...TGCACTTTTTTT/TAGAAAATGATG...AGCAG|ATT 1 1 53.601
8696248 GT-AG 0 1.000000099473604e-05 1611 rna-XM_020239502.1 1565110 8 23314646 23316256 Ananas comosus 4615 CGG|GTGAGTTTGA...TTATTCTGGACC/TCTATAATGATT...TGCAG|ATT 1 1 66.533

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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]);