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 = 27592255

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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
153480743 GT-AG 0 0.0003136431257706 281 rna-XM_024517523.1 27592255 1 11927326 11927606 Physcomitrium patens 3218 CAT|GTAAATTATT...CATTCCTTTTTC/TTTCAATTCAGC...TACAG|ATA 0 1 29.382
153480744 GT-AG 0 5.77616404724196e-05 228 rna-XM_024517523.1 27592255 2 11928129 11928356 Physcomitrium patens 3218 CAG|GTATGTGCTT...TATTTATTAAAA/ATGTAATTTATT...GGCAG|GTA 0 1 40.237
153480745 GT-AG 0 1.000000099473604e-05 343 rna-XM_024517523.1 27592255 3 11929167 11929509 Physcomitrium patens 3218 CAG|GTGCGTGATC...TTCTCCTGAATG/TTTCTCCTGAAT...TTTAG|GTG 0 1 57.08
153480746 GT-AG 0 1.000000099473604e-05 306 rna-XM_024517523.1 27592255 4 11929663 11929968 Physcomitrium patens 3218 AAG|GTAAATACAG...ATGGTCATATTT/TTGTAGTTCATG...TGCAG|GAC 0 1 60.262
153480747 GT-AG 0 1.000000099473604e-05 200 rna-XM_024517523.1 27592255 5 11931107 11931306 Physcomitrium patens 3218 CAG|GTTAGTTTAA...GGCTCTTTTGCT/CTTTTGCTTACA...AGCAG|GAT 1 1 83.926
153480748 GT-AG 0 0.0004370654860322 208 rna-XM_024517523.1 27592255 6 11931536 11931743 Physcomitrium patens 3218 AAG|GTAATCTTTC...AATATTTTACTG/AGTTGACTAACT...TTCAG|GTC 2 1 88.688
153480749 GT-AG 0 1.000000099473604e-05 313 rna-XM_024517523.1 27592255 7 11932231 11932543 Physcomitrium patens 3218 TTG|GTAATGACTC...GTCGCTTCAATG/AAACTTCTCAAG...CTCAG|GAA 0 1 98.815

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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]);