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 = 19819649

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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
106117786 GT-AG 0 1.000000099473604e-05 223 rna-XM_022022372.1 19819649 1 263465 263687 Lobosporangium transversale 64571 CGG|GTAAGTCCTT...AATACCTATACA/CGCTCATTCATA...TCAAG|GAT 2 1 14.047
106117787 GT-AG 0 1.000000099473604e-05 126 rna-XM_022022372.1 19819649 2 263876 264001 Lobosporangium transversale 64571 TTG|GTAAAGATCA...GTCTTCTTTTCA/TCAGATCTAATG...AATAG|CGC 1 1 17.503
106117788 GT-AG 0 1.000000099473604e-05 150 rna-XM_022022372.1 19819649 3 264101 264250 Lobosporangium transversale 64571 AAG|GTAATACGTC...TTCACTTTATCT/TTTCTCTTCACT...TTTAG|AGA 1 1 19.323
106117789 GT-AG 0 2.1566758933687592e-05 82 rna-XM_022022372.1 19819649 4 264389 264470 Lobosporangium transversale 64571 TTT|GTAAGTTACT...AACACGTTGTCT/CCCATGGTAACA...TATAG|CTA 1 1 21.861
106117790 GT-AG 0 1.000000099473604e-05 122 rna-XM_022022372.1 19819649 5 264786 264907 Lobosporangium transversale 64571 TAG|GTAAGTGGGC...CATGTCTTCATA/CATGTCTTCATA...TTTAG|ATC 1 1 27.652
106117791 GT-AG 0 1.0098291157182249e-05 112 rna-XM_022022372.1 19819649 6 265442 265553 Lobosporangium transversale 64571 TCT|GTAAGACAGC...TTACTCTTATTT/TTTTTATTTATT...CGCAG|CTT 1 1 37.47
106117792 GT-AG 0 1.000000099473604e-05 106 rna-XM_022022372.1 19819649 7 265779 265884 Lobosporangium transversale 64571 GAG|GTAACAACAG...CTCTGTTTAATT/CTCTGTTTAATT...TATAG|CAC 1 1 41.607

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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]);