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 = 33342812

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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
186782995 GT-AG 0 1.000000099473604e-05 1522 rna-XM_027916829.1 33342812 1 98550485 98552006 Solanum pennellii 28526 AAG|GTTAGTTATT...CCTTCTTTAACT/CCTTCTTTAACT...TGCAG|AAG 0 1 21.317
186782996 GT-AG 0 0.0256940388798542 1325 rna-XM_027916829.1 33342812 2 98549062 98550386 Solanum pennellii 28526 AAG|GTTTTCTCTT...GTACTCTTAACT/GTACTCTTAACT...TCCAG|GAA 2 1 23.204
186782997 GT-AG 0 0.0400236669505845 503 rna-XM_027916829.1 33342812 3 98548384 98548886 Solanum pennellii 28526 GAG|GTATTCATGC...GCTATTTTAATG/ATTTTAATGATT...CCCAG|GTC 0 1 26.574
186782998 GT-AG 0 1.000000099473604e-05 290 rna-XM_027916829.1 33342812 4 98547178 98547467 Solanum pennellii 28526 GAT|GTAAGTCAAA...GTTGCCTTTGTT/TTATTGTTTATG...GCCAG|CCC 1 1 44.213
186782999 GT-AG 0 8.45668392591833e-05 335 rna-XM_027916829.1 33342812 5 98545821 98546155 Solanum pennellii 28526 AAG|GTTTAGTTTC...CCAAACTTAACG/TCCAAACTTAAC...CACAG|TTT 0 1 63.894
186783000 GT-AG 0 1.000000099473604e-05 1103 rna-XM_027916829.1 33342812 6 98543642 98544744 Solanum pennellii 28526 GGG|GTAAGGTTCC...TATTTCCTGATA/TATTTCCTGATA...TGCAG|GGG 2 1 84.614

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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]);