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 = 13349341

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Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
71011411 GT-AG 0 0.1022053635435233 45 mRNA_857 13349341 1 69438966 69439010 Entomophaga maimaiga 42810 GTG|GTATGCTTTT...TTTAGTTTAATT/TTTAGTTTAATT...TGTAG|GAT 0 1 12.883
71011412 GT-AG 0 0.0003349617525148 35 mRNA_857 13349341 2 69439107 69439141 Entomophaga maimaiga 42810 GCG|GTATGTATGA...ATTTTCGAATCC/ATCCAATTAAAA...TTTAG|AAA 0 1 16.81
71011413 GT-AG 0 1.000000099473604e-05 39 mRNA_857 13349341 3 69439305 69439343 Entomophaga maimaiga 42810 AGG|GTAATTAAGA...ATTAGCTTAACT/ATAAGATTGATT...AAAAG|AAC 1 1 23.476
71011414 GT-AG 0 1.482736351503242e-05 34 mRNA_857 13349341 4 69439405 69439438 Entomophaga maimaiga 42810 CAA|GTAAGTTGTA...GATATTTGAACT/TTTGAACTAAGC...TTTAG|GCT 2 1 25.971
71011415 GT-AG 0 1.000000099473604e-05 37 mRNA_857 13349341 5 69439770 69439806 Entomophaga maimaiga 42810 AAG|GTAACGCAAA...GTGATTCTAACT/GTGATTCTAACT...CCAAG|GTC 0 1 39.509
71011416 GT-AG 0 4.1473476744866553e-05 34 mRNA_857 13349341 6 69440683 69440716 Entomophaga maimaiga 42810 TTT|GTAAGCAAAC...ACTCTCCTAACT/ACTCTCCTAACT...TTCAG|GAT 0 1 75.337
71011417 GT-AG 0 1.887772602668793e-05 36 mRNA_857 13349341 7 69440828 69440863 Entomophaga maimaiga 42810 GAG|GTAAGCACTC...ATAGTCTTATTT/TATAGTCTTATT...CTTAG|GCC 0 1 79.877

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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]);