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 = 16590287

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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
88158611 GT-AG 0 0.0006648285689153 5987 rna-XM_044667178.1 16590287 1 579641429 579647415 Gracilinanus agilis 191870 CAG|GTATGTCTAT...TGTATTTTAATT/TTTTAATTCATC...CTTAG|GAT 1 1 69.336
88158612 GT-AG 0 1.000000099473604e-05 207383 rna-XM_044667178.1 16590287 2 579647531 579854913 Gracilinanus agilis 191870 TGG|GTGAGTAAAA...TTTTCTCTAACT/TTTTCTCTAACT...TCCAG|GGT 2 1 71.014
88158613 GT-AG 0 1.0199510854812034e-05 147098 rna-XM_044667178.1 16590287 3 579854989 580002086 Gracilinanus agilis 191870 AAG|GTAATATTTT...AACATTTTAATT/AACATTTTAATT...CTCAG|GAA 2 1 72.108
88158614 GT-AG 0 1.000000099473604e-05 3651 rna-XM_044667178.1 16590287 4 580002254 580005904 Gracilinanus agilis 191870 CAG|GTTGGAAATT...AGTCCCTCATCT/CATCTGTTTATT...AACAG|GCG 1 1 74.544
88158615 GT-AG 0 1.000000099473604e-05 13119 rna-XM_044667178.1 16590287 5 580005989 580019107 Gracilinanus agilis 191870 CAG|GTCAGTAGAG...TATTTCTTGATG/TATTTCTTGATG...TACAG|GAG 1 1 75.77
88158616 GT-AG 0 1.000000099473604e-05 58404 rna-XM_044667178.1 16590287 6 580019229 580077632 Gracilinanus agilis 191870 CAG|GTAATAGTTT...TTATCTTTATTT/ATTATTTTTATC...CCTAG|ATC 2 1 77.535
88158617 GT-AG 0 1.000000099473604e-05 174150 rna-XM_044667178.1 16590287 7 580077812 580251961 Gracilinanus agilis 191870 CTG|GTAAGGCACA...TCTTACTTGACT/TGTATATTAACT...CCTAG|GCA 1 1 80.146

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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]);