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)

8 rows where transcript_id = 20781781

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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
111341464 GT-AG 0 0.0006552509192269 539 rna-XM_021756280.2 20781781 1 40728615 40729153 Manihot esculenta 3983 CAG|GTACATTTCA...GCATCTCTAACT/TCGTTATTTACC...TACAG|GTG 0 1 5.134
111341465 GT-AG 0 7.711177463075888e-05 1478 rna-XM_021756280.2 20781781 2 40726948 40728425 Manihot esculenta 3983 GAA|GTAGGTCCCT...TGATTCTTGATG/TTTTGTTTGAAT...TACAG|GTG 0 1 9.689
111341466 GT-AG 0 1.000000099473604e-05 95 rna-XM_021756280.2 20781781 3 40726760 40726854 Manihot esculenta 3983 GAG|GTTAGTAGGC...TGATTTTTGCTT/TATCGCTTCACT...TGTAG|GTT 0 1 11.931
111341467 GT-AG 0 1.000000099473604e-05 75 rna-XM_021756280.2 20781781 4 40726502 40726576 Manihot esculenta 3983 GAG|GTGGTTTTCT...TATTCCTTTTTC/AGTTATCTGATT...TCTAG|GTT 0 1 16.341
111341468 GT-AG 0 0.0015690585431594 80 rna-XM_021756280.2 20781781 5 40726319 40726398 Manihot esculenta 3983 CAG|GTATATTTAA...ATTTCGTTCACG/ATTTCGTTCACG...TGCAG|CGG 1 1 18.824
111341469 GT-AG 0 0.0001363544867853 1467 rna-XM_021756280.2 20781781 6 40724666 40726132 Manihot esculenta 3983 AAG|GTATTTAAGA...TATATCATATCT/CTATATATCATA...TTCAG|GTA 1 1 23.307
111341470 GT-AG 0 1.4056340047082996e-05 332 rna-XM_021756280.2 20781781 7 40721884 40722215 Manihot esculenta 3983 CCT|GTAAGATAGT...GTTATTTTGATT/TTCTTTTTCACA...TTTAG|AAG 0 1 82.357
111341471 GT-AG 0 0.0013444252214854 350 rna-XM_021756280.2 20781781 8 40720947 40721296 Manihot esculenta 3983 GAG|GTAGTCATCA...ATCATCTTAACA/ATGTTTTTTATT...GCCAG|ATC 2 1 96.505

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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]);