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 = 19668063

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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
105498007 GT-AG 0 1.3352821799331697e-05 99 rna-KI688_001010 19668063 1 3592077 3592175 Linnemannia hyalina 64524 CTT|GTAAGTCACC...CTATCCTTCTCC/CATGGACTGACA...AACAG|CGC 2 1 1.321
105498008 GT-AG 0 1.000000099473604e-05 265 rna-KI688_001010 19668063 2 3592693 3592957 Linnemannia hyalina 64524 AAT|GTAAGTGTGC...TTTCATTTGACT/TTTCATTTGACT...GATAG|GAC 0 1 15.852
105498009 GT-AG 0 4.136615807971658e-05 86 rna-KI688_001010 19668063 3 3593062 3593147 Linnemannia hyalina 64524 CTT|GTAAGTATCA...CGTCCCTTCTTT/CGCTCATTCACT...AATAG|ACC 2 1 18.775
105498010 GT-AG 0 2.9492330627019088e-05 98 rna-KI688_001010 19668063 4 3593232 3593329 Linnemannia hyalina 64524 TCC|GTAAGTATAA...AGTGTCATATTT/CAACGACTAATC...AATAG|TGC 2 1 21.135
105498011 GT-AG 0 2.319583025243783e-05 95 rna-KI688_001010 19668063 5 3593436 3593530 Linnemannia hyalina 64524 TTG|GTGTGTTCAG...TTTCCCTTTGTA/TTGATTCTAACA...CATAG|CCG 0 1 24.115
105498012 GT-AG 0 4.001122630944956e-05 92 rna-KI688_001010 19668063 6 3594340 3594431 Linnemannia hyalina 64524 TCT|GTAAGTCATG...CGTTTCTAAACC/TATTATTTTACG...CTTAG|GCG 2 1 46.852
105498013 GT-AG 0 1.000000099473604e-05 98 rna-KI688_001010 19668063 7 3595157 3595254 Linnemannia hyalina 64524 CAC|GTAAGAATCC...GTATCATTAACA/CCTTCTCTTACA...AATAG|TCC 1 1 67.229

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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]);