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 = 13349344

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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
71011425 GT-AG 0 0.0165558903739687 35 mRNA_1815 13349344 1 155545368 155545402 Entomophaga maimaiga 42810 GAG|GTATTTTTTT...TCTATCTTTCCA/TCCATGCTAAAT...CAAAG|GTA 0 1 41.375
71011426 GT-AG 0 1.000000099473604e-05 37 mRNA_1815 13349344 2 155545502 155545538 Entomophaga maimaiga 42810 CAA|GTAAGGGCAG...AAGTCAGCGACT/CAGCGACTGACA...AATAG|GCT 0 1 45.5
71011427 GT-AG 0 1.000000099473604e-05 36 mRNA_1815 13349344 3 155545980 155546015 Entomophaga maimaiga 42810 TTG|GTAGGAACTC...TTAATTAGGACT/TTAGGACTAATA...TTTAG|GAC 0 1 63.875
71011428 GT-AG 0 7.085000890800767e-05 32 mRNA_1815 13349344 4 155546155 155546186 Entomophaga maimaiga 42810 ATG|GTAAGCTCAT...TTCTTTCTAACA/TTCTTTCTAACA...GGCAG|AAA 1 1 69.667
71011429 GT-AG 0 1.000000099473604e-05 34 mRNA_1815 13349344 5 155546296 155546329 Entomophaga maimaiga 42810 AAG|GTACTGGTTC...ATCATCTAATAT/AATCATCTAATA...TTTAG|CCG 2 1 74.208
71011430 GT-AG 0 1.000000099473604e-05 35 mRNA_1815 13349344 6 155546658 155546692 Entomophaga maimaiga 42810 CAA|GTAAGACTTT...TACCACTAAATA/GTACCACTAAAT...TCAAG|GTA 0 1 87.875

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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]);