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 = 2107379

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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
11507796 GT-AG 0 1.000000099473604e-05 13321 rna-XM_009870145.1 2107379 1 31921 45241 Apaloderma vittatum 57397 AAG|GTAAATAAGC...TTAATTTTAAAT/TTAATTTTAAAT...TATAG|GAA 1 1 1.564
11507797 GT-AG 0 1.000000099473604e-05 3593 rna-XM_009870145.1 2107379 2 28077 31669 Apaloderma vittatum 57397 CAG|GTAAGATGAC...TTTTCTTTGTCA/TTCTTTGTCACT...ATTAG|CGT 0 1 31.769
11507798 GT-AG 0 0.0002160248733576 1796 rna-XM_009870145.1 2107379 3 26209 28004 Apaloderma vittatum 57397 AAG|GTATAATAAT...CGACTCTTGACT/TGAATTTTCATT...TTTAG|GAA 0 1 40.433
11507799 GT-AG 0 0.0002668538760534 6666 rna-XM_009870145.1 2107379 4 19460 26125 Apaloderma vittatum 57397 CAA|GTAAGCTAGT...TGTGCCTTGTCT/TTGCAAGTTACA...TCTAG|GCA 2 1 50.421
11507800 GT-AG 0 0.0004469843269239 1032 rna-XM_009870145.1 2107379 5 18331 19362 Apaloderma vittatum 57397 GTG|GTAAGCTGCG...TTTTTTTTATTA/CTTTTTTTTATT...TCCAG|CCA 0 1 62.094
11507801 GT-AG 0 1.000000099473604e-05 2149 rna-XM_009870145.1 2107379 6 15977 18125 Apaloderma vittatum 57397 CAA|GTGAGTTTTT...CTTTCCTTTGTC/CCACGAGTGATT...AACAG|AAG 1 1 86.763
11507802 GT-AG 0 3.092901758739775e-05 2906 rna-XM_009870145.1 2107379 7 12977 15882 Apaloderma vittatum 57397 TGA|GTAAGTAAAT...TTAACTTTAATA/TTAACTTTAATA...CACAG|AGC 2 1 98.075

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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]);