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 = 29793359

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
166626327 GT-AG 0 1.000000099473604e-05 631 rna-XM_031526003.1 29793359 1 43011006 43011636 Punica granatum 22663 CAG|GTGACGCACT...TTCTCATTAGTT/CTTATTCTCATT...TATAG|GTG 0 1 5.735
166626328 GT-AG 0 1.000000099473604e-05 615 rna-XM_031526003.1 29793359 2 43010202 43010816 Punica granatum 22663 GAA|GTGCGTAATT...ACTCCTTTCATT/AGTTGATTTACT...TGCAG|GTG 0 1 10.368
166626329 GT-AG 0 1.000000099473604e-05 91 rna-XM_031526003.1 29793359 3 43010018 43010108 Punica granatum 22663 GAG|GTGAATAATC...ATTTTCTGAACT/TATTTTCTGAAC...TGCAG|GTG 0 1 12.647
166626330 GT-AG 0 1.000000099473604e-05 77 rna-XM_031526003.1 29793359 4 43009758 43009834 Punica granatum 22663 GAG|GTGATGCTTG...TTTATCTTGAAG/GTTATATTTATC...TGCAG|GTC 0 1 17.132
166626331 GT-AG 0 0.0006660434633033 98 rna-XM_031526003.1 29793359 5 43009557 43009654 Punica granatum 22663 CAG|GTATTTGGAT...GGTTTCTTAATT/CTTAATTTTATT...TGCAG|CTG 1 1 19.657
166626332 GT-AG 0 0.0237957640193043 346 rna-XM_031526003.1 29793359 6 43009025 43009370 Punica granatum 22663 GAG|GTATGCATTT...TATCTTTTAGTT/TCATTGTTGATT...TGCAG|GCA 1 1 24.216
166626333 GT-AG 0 1.000000099473604e-05 102 rna-XM_031526003.1 29793359 7 43006467 43006568 Punica granatum 22663 CCT|GTAAGAAAAT...TTATTATTAATT/TTATTATTAATT...TACAG|ATT 0 1 84.412

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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]);