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 = 15495804

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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
83762828 GT-AG 0 0.0001419675634125 490 rna-XM_014777426.3 15495804 1 57368880 57369369 Glycine max 3847 CAG|GTATGGTTAC...CTTTCTTCAATA/TAGGAATTCATT...TGCAG|ATG 0 1 57.197
83762829 GT-AG 0 0.2114869402208741 130 rna-XM_014777426.3 15495804 2 57368620 57368749 Glycine max 3847 AAT|GTATTCACTT...CTCTTTTTATAT/CTGGACTTCATT...CATAG|ATC 1 1 60.48
83762830 GT-AG 0 0.6606152928906659 306 rna-XM_014777426.3 15495804 3 57368225 57368530 Glycine max 3847 GAG|GTACCTCTTA...GGATTCTTAATT/ATTATTATTATT...TACAG|CTT 0 1 62.727
83762831 GT-AG 0 1.000000099473604e-05 1063 rna-XM_014777426.3 15495804 4 57366923 57367985 Glycine max 3847 TGG|GTAAGCGCTA...TTTCTCTTCTCT/TTTCTATTCATT...TTCAG|ATC 2 1 68.763
83762832 GT-AG 0 1.000000099473604e-05 849 rna-XM_014777426.3 15495804 5 57365987 57366835 Glycine max 3847 CAG|GTTCTAAGCC...AAGTATTTACTT/TAAGTATTTACT...CTTAG|GTT 2 1 70.96
83762833 GT-AG 0 0.0170128377816928 135 rna-XM_014777426.3 15495804 6 57365752 57365886 Glycine max 3847 TCG|GTAAACATTG...TTGTTCTTAACT/TTGTTCTTAACT...GGAAG|ACA 0 1 73.485
83762834 GT-AG 0 2.2156271130703727e-05 83 rna-XM_014777426.3 15495804 7 57365461 57365543 Glycine max 3847 CAG|GTGTTTATGT...ACTTCTTTATTT/TTAAGTTTTACT...TATAG|GTT 1 1 78.737

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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]);