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 = 9472628

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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
51566068 GT-AG 0 1.000000099473604e-05 144 rna-XM_042034465.1 9472628 2 459048 459191 Corvus kubaryi 68294 GAG|GTGGGTGTGG...AGTGCCATCGCT/TTGGTCCCCACT...CACAG|CTG 0 1 10.561
51566069 GT-AG 0 1.000000099473604e-05 138 rna-XM_042034465.1 9472628 3 459378 459515 Corvus kubaryi 68294 TCA|GTGCGTCCGG...CCCTCCTGAGCC/TCCCTCCTGAGC...CCCAG|ATC 0 1 18.85
51566070 GT-AG 0 1.964316098163912e-05 202 rna-XM_042034465.1 9472628 4 459646 459847 Corvus kubaryi 68294 TGG|GTACGTTGTG...CCACTCCTGCTA/ATGGGGGTGACC...CCCAG|GCG 1 1 24.643
51566071 GT-AG 0 1.000000099473604e-05 75 rna-XM_042034465.1 9472628 5 460044 460118 Corvus kubaryi 68294 CAG|GTACGTGCCA...TGTCCCTTCTCC/TCCTGCCCCATC...TGCAG|GAA 2 1 33.378
51566072 GT-AG 0 1.000000099473604e-05 197 rna-XM_042034465.1 9472628 6 460177 460373 Corvus kubaryi 68294 TCG|GTGAGTTCCC...GGGGTTGTGACT/TTGTGACTAACA...CCCAG|ATG 0 1 35.963
51566073 GT-AG 0 1.000000099473604e-05 255 rna-XM_042034465.1 9472628 7 460548 460802 Corvus kubaryi 68294 CTG|GTGGGTGCTG...AAGTCCTTTCCA/TCCTTTCCAACA...CACAG|GCT 0 1 43.717
51566433 GT-AG 0 1.000000099473604e-05 648 rna-XM_042034465.1 9472628 1 458281 458928 Corvus kubaryi 68294 GAG|GTAAGTGGGG...ATCCCCCTGCCA/CACGCAGTGACA...CACAG|GGT   0 7.219

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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]);