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 = 15696649

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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
84732354 GT-AG 0 2.7712128277874432e-05 253 rna-gnl|WGS:JAHUZN|Goano.001G049500-1 15696649 1 5337338 5337590 Gossypium anomalum 47600 CGC|GTAAGTAATC...AAAATTTTAATG/GTTTTGTTCAAT...TCCAG|ACT 2 1 19.029
84732355 GT-AG 0 1.000000099473604e-05 472 rna-gnl|WGS:JAHUZN|Goano.001G049500-1 15696649 2 5336765 5337236 Gossypium anomalum 47600 AAG|GTACTTGAAT...TTTTACTTATTT/CTTTTACTTATT...AATAG|GGA 1 1 21.68
84732356 GT-AG 0 1.000000099473604e-05 950 rna-gnl|WGS:JAHUZN|Goano.001G049500-1 15696649 3 5334762 5335711 Gossypium anomalum 47600 ATA|GTGAATAAGA...TATTTATTAAAT/TATTTATTAAAT...ATTAG|GGA 1 1 49.318
84732357 GT-AG 0 1.000000099473604e-05 167 rna-gnl|WGS:JAHUZN|Goano.001G049500-1 15696649 4 5333868 5334034 Gossypium anomalum 47600 CGC|GTGAGCACTT...GTATTTTTAGTG/TTTATATTTATT...TCCAG|AGT 2 1 68.399
84732358 GT-AG 0 0.0455661147810962 384 rna-gnl|WGS:JAHUZN|Goano.001G049500-1 15696649 5 5333365 5333748 Gossypium anomalum 47600 GAG|GTATGTTTTC...TATTTTTTAATC/ATTTTTTTAATC...AACAG|GAG 1 1 71.522
84732359 GT-AG 0 0.000418696020465 289 rna-gnl|WGS:JAHUZN|Goano.001G049500-1 15696649 6 5333046 5333334 Gossypium anomalum 47600 CAG|GTATGTATAA...ATTCTTTTACTT/CTTTTACTTACT...AATAG|GGA 1 1 72.31

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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]);