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 = 20781833

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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
111342124 GT-AG 0 1.000000099473604e-05 504 rna-XM_021755799.2 20781833 1 40454852 40455355 Manihot esculenta 3983 GAG|GTAGTATGAT...ACCATTTTACTT/ATTTTACTTATG...GATAG|GGC 0 1 10.502
111342125 GT-AG 0 1.000000099473604e-05 1295 rna-XM_021755799.2 20781833 2 40455657 40456951 Manihot esculenta 3983 AAG|GTTGTTCATC...GAATTTTTAATC/GAATTTTTAATC...TGCAG|GTG 1 1 19.665
111342126 GT-AG 0 1.000000099473604e-05 642 rna-XM_021755799.2 20781833 3 40457317 40457958 Manihot esculenta 3983 GAG|GTCAGCTACA...TGTACTTTACTG/GTGTACTTTACT...CACAG|ATG 0 1 30.776
111342127 GT-AG 0 0.0102572931243255 100 rna-XM_021755799.2 20781833 4 40458086 40458185 Manihot esculenta 3983 CTT|GTATGTTGAA...TCTACTGTAATT/ATGTGATTAACT...TGCAG|ATG 1 1 34.642
111342128 GT-AG 0 1.000000099473604e-05 309 rna-XM_021755799.2 20781833 5 40459200 40459508 Manihot esculenta 3983 AAG|GTAGGGTTAG...TTTCTTTTGGCC/CAAATTTTCACA...CACAG|AAC 1 1 65.51
111342129 GT-AG 0 0.0001036867410989 798 rna-XM_021755799.2 20781833 6 40460243 40461040 Manihot esculenta 3983 CAA|GTAAGTTACT...GGATCTTTGATT/TTAGTTGTCATC...TGCAG|GTT 0 1 87.854

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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]);