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)

6 rows where transcript_id = 3611917

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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
18022051 GT-AG 0 4.880629977452895e-05 82 rna-XM_020398516.1 3611917 1 16777874 16777955 Asparagus officinalis 4686 GGG|GTAAAGTTTC...GTTATCTTATTT/TTTTTTTTGAAT...TGCAG|TTG 1 1 57.333
18022052 GT-AG 0 1.4651807149349412e-05 96 rna-XM_020398516.1 3611917 2 16778130 16778225 Asparagus officinalis 4686 CAG|GTACTGATGT...TGCGCTTTATCT/CTCCTACTAACT...TTTAG|TTA 1 1 62.068
18022053 GT-AG 0 0.0009999714679464 73 rna-XM_020398516.1 3611917 3 16778286 16778358 Asparagus officinalis 4686 AAG|GTAATCTCAC...GATTCTTTGATA/GATTCTTTGATA...AACAG|ACA 1 1 63.701
18022054 GT-AG 0 0.0014781774733161 84 rna-XM_020398516.1 3611917 4 16778557 16778640 Asparagus officinalis 4686 AAG|GTATATCCTT...CATCTCTTATTA/TATACTTTCATC...TGTAG|GAC 1 1 69.088
18022055 GT-AG 0 0.0025291114141161 76 rna-XM_020398516.1 3611917 5 16778884 16778959 Asparagus officinalis 4686 TTG|GTACGTTTTG...TCATCCTTTTCT/TGATCATTCATC...GACAG|AAC 1 1 75.701
18022056 GT-AG 0 0.0008946561510536 70 rna-XM_020398516.1 3611917 6 16779110 16779179 Asparagus officinalis 4686 AAG|GTAACTCGGT...TTGTACTTAACT/ACTTAACTTATT...TGCAG|CTA 1 1 79.782

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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]);