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)

6 rows where transcript_id = 2121789

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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
11621064 GT-AG 0 1.000000099473604e-05 46 rna-XM_009823389.1 2121789 1 1774107 1774152 Aphanomyces astaci 112090 AAG|GTACGTGCGA...ACACTTTCAACA/GACACTTTCAAC...CGTAG|ATC 0 1 13.602
11621065 GT-AG 0 0.0012649547661012 65 rna-XM_009823389.1 2121789 2 1773841 1773905 Aphanomyces astaci 112090 GTG|GTATCGAACA...TGTCGCATGATC/ATCGAGCTGACC...GGTAG|GAA 0 1 18.61
11621066 GT-AG 0 0.0008272749044302 365 rna-XM_009823389.1 2121789 3 1773290 1773654 Aphanomyces astaci 112090 CTG|GTACCAATAT...TATATATTATTT/ATATATATTATT...TGTAG|AAC 0 1 23.244
11621067 GT-AG 0 1.0020294088229852e-05 60 rna-XM_009823389.1 2121789 4 1773072 1773131 Aphanomyces astaci 112090 GTG|GTACGGCCTA...CGACCTTTGACT/TATATATTTATT...GATAG|GTA 2 1 27.18
11621068 GT-AG 0 2.268159547268483e-05 163 rna-XM_009823389.1 2121789 5 1772107 1772269 Aphanomyces astaci 112090 GCG|GTACGTGTGC...TGAACGTTGACC/TGAACGTTGACC...TATAG|GAC 0 1 47.16
11621069 GT-AG 0 1.000000099473604e-05 57 rna-XM_009823389.1 2121789 6 1771919 1771975 Aphanomyces astaci 112090 ATG|GTACGGTCGA...GTAGTCATAGGG/GAAGTAGTCATA...TATAG|GTC 2 1 50.424

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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]);