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 = 30628746

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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
171036145 GT-AG 0 1.000000099473604e-05 9197 gene-LOC109917664 30628746 1 28758 37954 Rhincodon typus 259920 TAA|GTGAGTGCGG...GTATATTTGAAG/GTATATTTGAAG...TCCAG|ATT   0 11.499
171036146 GT-AG 0 2.115125448076211e-05 9390 gene-LOC109917664 30628746 2 19211 28600 Rhincodon typus 259920 CAG|GTACGTTGGA...TATGCTTGAGTA/GCAAGTCTAATG...CTCAG|GCA   0 15.356
171036147 GT-AG 0 1.000000099473604e-05 3383 gene-LOC109917664 30628746 3 15722 19104 Rhincodon typus 259920 TGG|GTAAGTGTAT...CTGACTTTAACA/AAGTTGCTGACT...CACAG|ATA   0 17.961
171036148 GT-AG 0 0.0012558930850077 6890 gene-LOC109917664 30628746 4 8634 15523 Rhincodon typus 259920 CAG|GTAACCGTGA...AATTTCTAAAAT/TAATTTCTAAAA...CACAG|GAC   0 22.826
171036149 GT-AG 0 1.000000099473604e-05 1408 gene-LOC109917664 30628746 5 7033 8440 Rhincodon typus 259920 AAG|GTAAGGTGTT...ATATTTTTAATC/ATATTTTTAATC...TACAG|GTT   0 27.568
171036150 GT-AG 0 1.000000099473604e-05 1508 gene-LOC109917664 30628746 6 5437 6944 Rhincodon typus 259920 CAG|GTAAAAGAAA...TTATGTTTGATT/TTTATATTTATT...CTTAG|ATT   0 29.73
171036151 GT-AG 0 0.0001438838489914 925 gene-LOC109917664 30628746 7 4366 5290 Rhincodon typus 259920 AAG|GTATGTCATG...GATTATTTGACT/TTGACTCTGATT...TACAG|GGG   0 33.317

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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]);