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 = 31411840

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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
174864830 GT-AG 0 0.0004101334336243 1077 rna-NCT539_LOCUS90 31411840 1 508239 509315 Rotaria sp. silwood2 2762512 AAA|GTAAATATCA...TTATTCTTAATG/TTTATTCTTAAT...TCTAG|CAG 1 1 10.081
174864831 GT-AG 0 2.421182014891469e-05 66 rna-NCT539_LOCUS90 31411840 2 509547 509612 Rotaria sp. silwood2 2762512 CTG|GTATAAAGAA...AATTCATTGATT/ATTTATTTCATA...TCTAG|GAA 1 1 13.918
174864832 GT-AG 0 1.000000099473604e-05 1586 rna-NCT539_LOCUS90 31411840 3 510968 512553 Rotaria sp. silwood2 2762512 CAG|GTAAGCGGAT...TTCATTTTATTT/AGTCTATTCATT...TTTAG|CAA 0 1 36.423
174864833 GT-AG 0 4.201691170708505e-05 1856 rna-NCT539_LOCUS90 31411840 4 514012 515867 Rotaria sp. silwood2 2762512 GAG|GTTTGTAGTT...TTTTTTTTATTT/GTTTTTTTTATT...TTTAG|TCG 0 1 60.638
174864834 GT-AG 0 0.0014197992281355 49 rna-NCT539_LOCUS90 31411840 5 516978 517026 Rotaria sp. silwood2 2762512 CAA|GTTTGTTATT...TTATTTTTATTT/TTTATTTTTATT...TGTAG|TTA 0 1 79.073
174864835 GT-AG 0 1.000000099473604e-05 2414 rna-NCT539_LOCUS90 31411840 6 517409 519822 Rotaria sp. silwood2 2762512 CAG|GTAAAAGTTT...TAACCCATAATT/ATATTGTTAATT...TAAAG|ATG 1 1 85.418
174864836 GT-AG 0 1.000000099473604e-05 234 rna-NCT539_LOCUS90 31411840 7 520520 520753 Rotaria sp. silwood2 2762512 AAG|GTAAATAATA...ATATCCTTTTTG/CCTTTTTGCATT...TCTAG|TGA 2 1 96.994

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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]);