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 = 2140979

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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
11677124 GT-AG 0 1.000000099473604e-05 45 rna-gnl|WGS:JAHQRK|AC1031_001198-T1_mrna 2140979 1 3489078 3489122 Aphanomyces cochlioides 112091 AAG|GTACAAACAA...GAGATCCAACAA/AAACGAATGATG...TGTAG|GCG 2 1 5.795
11677125 GT-AG 0 0.0023819437736643 45 rna-gnl|WGS:JAHQRK|AC1031_001198-T1_mrna 2140979 2 3488835 3488879 Aphanomyces cochlioides 112091 TTG|GTATGATTTC...TCTTCCTTGCAC/TGTGACATAATT...CGCAG|GTC 2 1 10.784
11677126 GT-AG 0 0.0001399421286892 43 rna-gnl|WGS:JAHQRK|AC1031_001198-T1_mrna 2140979 3 3488092 3488134 Aphanomyces cochlioides 112091 AAC|GTATGAGTTG...GCTTTCATGAAT/ACAGCTTTCATG...CGTAG|GTT 0 1 28.42
11677127 GT-AG 0 0.0029530395005591 42 rna-gnl|WGS:JAHQRK|AC1031_001198-T1_mrna 2140979 4 3487882 3487923 Aphanomyces cochlioides 112091 CAG|GTATCAAAGT...TTCTCTTTCATT/TTCTCTTTCATT...CATAG|TTG 0 1 32.653
11677128 GT-AG 0 1.000000099473604e-05 54 rna-gnl|WGS:JAHQRK|AC1031_001198-T1_mrna 2140979 5 3487741 3487794 Aphanomyces cochlioides 112091 CAG|GTCAGCAATC...ATGCTCTTATCC/AATGCTCTTATC...CTTAG|AAA 0 1 34.845
11677129 GT-AG 0 0.000322809831896 46 rna-gnl|WGS:JAHQRK|AC1031_001198-T1_mrna 2140979 6 3487374 3487419 Aphanomyces cochlioides 112091 AAG|GTATAATGCT...TGGCCCTCACCA/GTGGCCCTCACC...CCAAG|ATC 0 1 42.933

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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]);