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 = 27391073

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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
152561259 GT-AG 0 1.000000099473604e-05 1935 rna-XM_008787568.3 27391073 1 30816084 30818018 Phoenix dactylifera 42345 AAG|GTGAGCGAAG...CTTTTGTTACTG/ACTTTTGTTACT...TATAG|GTA 0 1 1.444
152561260 GT-AG 0 1.000000099473604e-05 890 rna-XM_008787568.3 27391073 2 30815107 30815996 Phoenix dactylifera 42345 AAT|GTGAGTTTGC...GAGTCCTGTTCC/TATGTGCTGACA...CACAG|GAT 0 1 4.061
152561261 GT-AG 0 1.000000099473604e-05 114 rna-XM_008787568.3 27391073 3 30814903 30815016 Phoenix dactylifera 42345 ACT|GTGAGATCAT...TTACCGTTGATT/TTGTTATTTACC...TTTAG|TCT 0 1 6.769
152561262 GT-AG 0 1.000000099473604e-05 95 rna-XM_008787568.3 27391073 4 30814721 30814815 Phoenix dactylifera 42345 CTG|GTTAGTACCA...ACTAACTTGATT/CTTGATTTCATC...AAAAG|ATA 0 1 9.386
152561263 GT-AG 0 1.909853752414194e-05 1805 rna-XM_008787568.3 27391073 5 30812796 30814600 Phoenix dactylifera 42345 GAT|GTAAATGATT...ATGTTTTTGATG/ATGTTTTTGATG...TACAG|GAT 0 1 12.996
152561264 GT-AG 0 0.0001068809525588 89 rna-XM_008787568.3 27391073 6 30810628 30810716 Phoenix dactylifera 42345 CAG|GTAGTGTTGC...TCGTCCTTGACC/AGACTCCTTATC...ATTAG|GTT 0 1 75.542
152561265 GT-AG 0 0.0004451760629516 4078 rna-XM_008787568.3 27391073 7 30806403 30810480 Phoenix dactylifera 42345 CAG|GTAGTCTTCT...TCAGTGTTATTT/AACACACTGATC...GGTAG|CTA 0 1 79.964
152561266 GT-AG 0 1.000000099473604e-05 82 rna-XM_008787568.3 27391073 8 30805785 30805866 Phoenix dactylifera 42345 CAG|GTAGTTAAGA...GATTTTTTATTT/TGATTTTTTATT...TGCAG|TCG 2 1 96.089

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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]);