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 = 22631620

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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
122792227 GT-AG 0 1.000000099473604e-05 565 rna-XM_009410374.2 22631620 1 16545990 16546554 Musa acuminata 4641 AAG|GTAATTGCTC...TTAATCTTATTA/ATTAATCTTATT...ATTAG|TTC 0 1 3.233
122792228 GT-AG 0 1.000000099473604e-05 339 rna-XM_009410374.2 22631620 2 16545309 16545647 Musa acuminata 4641 AAT|GTAAGTAATA...CCATTTTTGGTT/CTGATTATCACA...TGTAG|GTG 0 1 12.224
122792229 GT-AG 0 1.000000099473604e-05 1671 rna-XM_009410374.2 22631620 3 16543378 16545048 Musa acuminata 4641 CAG|GTGGGAATTA...GCTTGCTTACTA/TGCTTGCTTACT...CACAG|GTT 2 1 19.059
122792230 GT-AG 0 0.0132384620216743 180 rna-XM_009410374.2 22631620 4 16543056 16543235 Musa acuminata 4641 GAG|GTTTGCTTCG...ATGACTTTGACA/TCTTTGCTAATC...TTCAG|GTA 0 1 22.792
122792231 GT-AG 0 0.0007926683960468 140 rna-XM_009410374.2 22631620 5 16542544 16542683 Musa acuminata 4641 GAG|GTATTTGCCA...GTTTTCTTACAT/AGTTTTCTTACA...CAAAG|GAT 0 1 32.571
122792232 GT-AG 0 0.0004133956609985 1121 rna-XM_009410374.2 22631620 6 16541291 16542411 Musa acuminata 4641 CAG|GTATGTCTTA...CACTTTGTAACT/TTGTAACTAACA...CCCAG|GTG 0 1 36.041
122792233 GT-AG 0 0.0371460297690808 125 rna-XM_009410374.2 22631620 7 16541037 16541161 Musa acuminata 4641 CAG|GTATGCTGTT...TACATTTTAATT/TTTAATTTCATC...TTCAG|ACT 0 1 39.432

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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]);