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 = 37928513

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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
209468886 GT-AG 0 1.318546687131286 945 rna-XM_017580753.1 37928513 2 2453827 2454771 Vigna angularis 3914 CTG|GTACCTTCTT...CATACCTTAACA/TCTTATTTGATG...TGCAG|GAA 0 1 3.678
209468887 GT-AG 0 1.000000099473604e-05 278 rna-XM_017580753.1 37928513 3 2454846 2455123 Vigna angularis 3914 TAG|GTCGGTTTGT...GGCTTCTTACAT/ACATGTTTAACT...TGCAG|AGA 2 1 4.793
209468888 GT-AG 0 0.0001823842682795 646 rna-XM_017580753.1 37928513 4 2458182 2458827 Vigna angularis 3914 CAG|GTATTTAAGT...TGAGACTTATTT/ATGAGACTTATT...TGCAG|ATT 0 1 50.889
209468889 GT-AG 0 0.0001145938934405 841 rna-XM_017580753.1 37928513 5 2461373 2462213 Vigna angularis 3914 CTG|GTACGATTCT...CACTTTTTATCT/TTATCTCTAACT...TATAG|CTG 1 1 89.252
209468890 GT-AG 0 3.88666910171816e-05 906 rna-XM_017580753.1 37928513 6 2462669 2463574 Vigna angularis 3914 CAG|GTCATTTTTT...ATATCCTTGATA/GTATTACTAATA...ATCAG|GTG 0 1 96.111
209468891 GT-AG 0 1.000000099473604e-05 202 rna-XM_017580753.1 37928513 7 2463692 2463893 Vigna angularis 3914 AAG|GTAAATGTAG...CTTTGTTTAACC/CTTTGTTTAACC...CACAG|AGT 0 1 97.875
209482448 GT-AG 0 1.000000099473604e-05 245 rna-XM_017580753.1 37928513 1 2453498 2453742 Vigna angularis 3914 AAG|GTGCAACCAA...GATGCTTTCACT/GATGCTTTCACT...TCCAG|ATC   0 2.909

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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]);