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 = 15696570

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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
84731249 GT-AG 0 1.000000099473604e-05 258 rna-gnl|WGS:JAHUZN|Goano.001G078500-1 15696570 1 9571166 9571423 Gossypium anomalum 47600 GTG|GTAAATAAAA...TTCCTCCTACCG/TTATTGTTCATC...CGCAG|CGA 1 1 1.524
84731250 GT-AG 0 1.000000099473604e-05 99 rna-gnl|WGS:JAHUZN|Goano.001G078500-1 15696570 2 9571558 9571656 Gossypium anomalum 47600 CGG|GTCAATTTCT...ATATCTCCAATC/GATCTGGTCATA...CCCAG|CAA 0 1 3.696
84731251 GT-AG 0 1.5658767703081964e-05 2396 rna-gnl|WGS:JAHUZN|Goano.001G078500-1 15696570 3 9571859 9574254 Gossypium anomalum 47600 CCT|GTAAAAATTA...TTCCTCTTGTAA/CCTCTTGTAAAT...CTCAG|CCT 1 1 6.971
84731252 GT-AG 0 1.8928331165914057e-05 92 rna-gnl|WGS:JAHUZN|Goano.001G078500-1 15696570 4 9575838 9575929 Gossypium anomalum 47600 CAT|GTTCTCACAA...ATCTCATTAAGC/AAAGATCTCATT...TCCAG|AAA 0 1 32.636
84731253 GT-AG 0 8.075999912845168e-05 141 rna-gnl|WGS:JAHUZN|Goano.001G078500-1 15696570 5 9576071 9576211 Gossypium anomalum 47600 CCA|GTACGATGAC...TCTTTCTGGAAA/CAAGTACGTATG...TAAAG|AAA 0 1 34.922
84731254 GT-AG 0 0.001357470918173 300 rna-gnl|WGS:JAHUZN|Goano.001G078500-1 15696570 6 9579731 9580030 Gossypium anomalum 47600 CAA|GTTTTCAAAA...CATCCTTTACCA/CCATCCTTTACC...AACAG|GAA 0 1 91.975

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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]);