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)

8 rows where transcript_id = 29320875

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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
163357090 GT-AG 0 1.000000099473604e-05 145 rna-XM_021964753.1 29320875 1 67829 67973 Prunus avium 42229 CAG|GTTCATTGCT...TTGGCCTAAATA/TTTGGCCTAAAT...CATAG|GTT 0 1 31.22
163357091 GT-AG 0 0.0008374275648877 153 rna-XM_021964753.1 29320875 2 68097 68249 Prunus avium 42229 CAG|GTACCAACTT...TTTTGCTTATTA/CTTTTGCTTATT...CGCAG|CTT 0 1 41.22
163357092 GT-AG 0 1.000000099473604e-05 126 rna-XM_021964753.1 29320875 3 68403 68528 Prunus avium 42229 GAG|GTAGGGGTTT...AGTTTATTGATC/AGTTTATTGATC...CACAG|AGG 0 1 53.659
163357093 GT-AG 0 0.0001052407629927 89 rna-XM_021964753.1 29320875 4 68615 68703 Prunus avium 42229 TTG|GTAACAAAAA...AGTGCTTTAACA/CTTTTTCTTACA...AACAG|GAT 2 1 60.65
163357094 GT-AG 0 1.000000099473604e-05 164 rna-XM_021964753.1 29320875 5 68789 68952 Prunus avium 42229 GAG|GTAAAATTAG...GGAATTTTGATT/GGAATTTTGATT...TTCAG|GAA 0 1 67.561
163357095 GT-AG 0 1.000000099473604e-05 124 rna-XM_021964753.1 29320875 6 69073 69196 Prunus avium 42229 GCT|GTGAGTAGTT...TAATTCTTATAT/TGTTTATTAATT...TTCAG|GCA 0 1 77.317
163357096 GT-AG 0 1.000000099473604e-05 92 rna-XM_021964753.1 29320875 7 69275 69366 Prunus avium 42229 CAG|GTGACACTTT...GATTGCTTAATT/ATGTAATTCATG...AGCAG|GTG 0 1 83.659
163357097 GT-AG 0 1.000000099473604e-05 103 rna-XM_021964753.1 29320875 8 69497 69599 Prunus avium 42229 TCG|GTCAGTCACA...CTGTTCTAATCA/TCTGTTCTAATC...TGCAG|GGA 1 1 94.228

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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]);