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 = 19419625

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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
103972479 GT-AG 0 1.000000099473604e-05 98 rna-XM_017834007.1 19419625 1 15782894 15782991 Lepidothrix coronata 321398 CCT|GTGAGTGCGG...TCCCGCCTGATG/TCCCGCCTGATG...TCCAG|GAG 2 1 11.049
103972480 GT-AG 0 0.0002299280925392 2891 rna-XM_017834007.1 19419625 2 15783064 15785954 Lepidothrix coronata 321398 GCT|GTAAGTATGG...CAGGTTTTAATG/CAGGTTTTAATG...TTCAG|CTT 2 1 15.494
103972481 GT-AG 0 0.0008757510810509 3137 rna-XM_017834007.1 19419625 3 15786027 15789163 Lepidothrix coronata 321398 CCT|GTAAGTTTGG...AGTATTTTAAAA/ATAATGTTAATT...CCTAG|ATT 2 1 19.938
103972482 GT-AG 0 0.0002622346003546 515 rna-XM_017834007.1 19419625 4 15789236 15789750 Lepidothrix coronata 321398 CCT|GTAAGTTGTT...TAAGCTCTAACT/TAAGCTCTAACT...TCCAG|TTC 2 1 24.383
103972483 GT-AG 0 1.5655972471493088e-05 1098 rna-XM_017834007.1 19419625 5 15789823 15790920 Lepidothrix coronata 321398 ACT|GTAAGTAATG...ATATGTTTATTT/AATATGTTTATT...TTTAG|AGA 2 1 28.827
103972484 GT-AG 0 0.0005485230592459 4633 rna-XM_017834007.1 19419625 6 15791091 15795723 Lepidothrix coronata 321398 CAG|GTATTCAGAA...GTAACCTAACTG/TGTAACCTAACT...TCTAG|ATT 1 1 39.321
103972485 GT-AG 0 4.068160237215376e-05 2567 rna-XM_017834007.1 19419625 7 15795889 15798455 Lepidothrix coronata 321398 CAG|GTATATGAAC...TTTCCTTTGGTC/ACTGTGATAATA...AATAG|GTC 1 1 49.506

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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]);