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 = 19668028

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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
105497840 GT-AG 0 1.000000099473604e-05 1351 rna-KI688_000246 19668028 1 940014 941364 Linnemannia hyalina 64524 CCT|GTGATAGATA...TGTCAATTATCT/TATCTACTCACA...CACAG|CAG 0 1 12.915
105497841 GT-AG 0 1.1086808201654666e-05 135 rna-KI688_000246 19668028 2 941659 941793 Linnemannia hyalina 64524 ATT|GTAAGTACCA...ATTGCTGTGACC/AAAATAATAATT...AATAG|GAT 0 1 19.831
105497842 GT-AG 0 1.8204613389032533e-05 183 rna-KI688_000246 19668028 3 942640 942822 Linnemannia hyalina 64524 TTC|GTGCTTTGCG...GGATCGTTGCCG/TGCTAGTAGATC...CTCAG|GGG 0 1 39.732
105497843 GT-AG 0 0.0124063941739479 92 rna-KI688_000246 19668028 4 943044 943135 Linnemannia hyalina 64524 CAG|GTATGTCTTT...TCCACCTTAACA/ACACAACTCATT...TCTAG|ATT 2 1 44.931
105497844 GT-AG 0 0.0057578501825566 91 rna-KI688_000246 19668028 5 943911 944001 Linnemannia hyalina 64524 AAG|GTACCATCTA...CATATATTAACA/CTTTTGTTTATG...GCCAG|CTC 0 1 63.162
105497845 GT-AG 0 0.000178943897939 224 rna-KI688_000246 19668028 7 945321 945544 Linnemannia hyalina 64524 CCC|GTCCACCAAA...ATTTTATTATTC/AATTTTATTATT...GATAG|AGT 0 1 93.79

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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]);