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 = 76458

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
346559 GT-AG 0 1.000000099473604e-05 679 rna-XM_022224490.1 76458 1 4944937 4945615 Acanthaster planci 133434 CAG|GTCAGAATAG...GATATTTTGAAG/CCACATTTCACA...GTCAG|AGA 1 1 4.287
346560 GT-AG 0 1.000000099473604e-05 887 rna-XM_022224490.1 76458 2 4945763 4946649 Acanthaster planci 133434 GAG|GTAAGGAACG...CTTGACTTAATT/CTTGACTTAATT...CGCAG|CTC 1 1 8.726
346561 GT-AG 0 1.000000099473604e-05 397 rna-XM_022224490.1 76458 3 4946874 4947270 Acanthaster planci 133434 ATG|GTAAGGTTTT...ACCACTTTATCG/AAAGATTTCACA...CCCAG|CTA 0 1 15.489
346562 GT-AG 0 3.460466877041768e-05 455 rna-XM_022224490.1 76458 4 4947451 4947905 Acanthaster planci 133434 GAG|GTATGTCCAT...AATCCTTTCGTT/GTAAATTTGAAA...TTTAG|GAG 0 1 20.924
346563 GT-AG 0 0.0001632868440492 379 rna-XM_022224490.1 76458 5 4948140 4948518 Acanthaster planci 133434 CGT|GTAAGTTCCC...ATTCTCATAACT/TCTATTCTCATA...GGCAG|GTA 0 1 27.989
346564 GT-AG 0 1.060260473034281e-05 520 rna-XM_022224490.1 76458 6 4948652 4949171 Acanthaster planci 133434 TTG|GTAAGTTAAA...CTGTCCTTCTCT/TTCTCTTTCAAA...ATTAG|AGC 1 1 32.005

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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]);