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)

8 rows where transcript_id = 25075772

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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
137882545 GT-AG 0 1.000000099473604e-05 503 rna-XM_020754740.1 25075772 1 694523 695025 Orbicella faveolata 48498 CAG|GTAAAGTCAA...TAGACTTTGATC/TAGACTTTGATC...TTCAG|GAT 0 1 46.819
137882546 GT-AG 0 1.000000099473604e-05 6648 rna-XM_020754740.1 25075772 2 687793 694440 Orbicella faveolata 48498 GCG|GTTAGTATGA...TTAGCCTTAGAC/ATTTATTTCATC...TTCAG|CGT 1 1 51.278
137882547 GT-AG 0 1.000000099473604e-05 1425 rna-XM_020754740.1 25075772 3 686323 687747 Orbicella faveolata 48498 GAG|GTAAATAAAT...TTTTTTTTATCG/TTTTTTTTTATC...AACAG|ATC 1 1 53.725
137882548 GT-AG 0 1.000000099473604e-05 250 rna-XM_020754740.1 25075772 4 685953 686202 Orbicella faveolata 48498 AAG|GTACGGTAGC...TCTATATTGATA/TCTATATTGATA...TTTAG|ATG 1 1 60.25
137882549 GT-AG 0 1.000000099473604e-05 694 rna-XM_020754740.1 25075772 5 685169 685862 Orbicella faveolata 48498 AAG|GTAAGAACAC...ACGGTTTGGATT/TGGTCGCTCAAT...CACAG|GCT 1 1 65.144
137882550 GT-AG 0 0.0001425393693765 573 rna-XM_020754740.1 25075772 6 684477 685049 Orbicella faveolata 48498 CCC|GTAAGTCTTT...TTCTCGTTACTT/AAGTTGATCATT...TCCAG|GTT 0 1 71.615
137882551 GT-AG 0 1.000000099473604e-05 292 rna-XM_020754740.1 25075772 7 683983 684274 Orbicella faveolata 48498 AAG|GTGATAAAAA...CAGTCTTTGGCA/TTTGGCATAATA...TCAAG|GTG 1 1 82.599
137882552 GT-AG 0 1.000000099473604e-05 209 rna-XM_020754740.1 25075772 8 683679 683887 Orbicella faveolata 48498 AGA|GTAAGTCACT...TTATTTATAACA/CTTGTGTTTATT...TCCAG|GTT 0 1 87.765

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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]);