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 = 19079859

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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
101755164 GT-AG 0 1.000000099473604e-05 11667 rna-XM_042869591.1 19079859 1 34928589 34940255 Lagopus leucura 30410 GAG|GTAAGCATTA...CAGCTCATATCA/GCACAGCTCATA...TTCAG|GTT 1 1 0.151
101755165 GT-AG 0 1.000000099473604e-05 614 rna-XM_042869591.1 19079859 2 34927904 34928517 Lagopus leucura 30410 TCT|GTGAGTTTTT...CACCCCTCATTT/CCACCCCTCATT...TGCAG|GTT 0 1 1.226
101755166 GT-AG 0 1.000000099473604e-05 732 rna-XM_042869591.1 19079859 3 34927082 34927813 Lagopus leucura 30410 AAG|GTAAGAATAC...AACTTCTGAACA/TATGTTATGACA...TTCAG|CTG 0 1 2.589
101755167 GT-AG 0 1.000000099473604e-05 564 rna-XM_042869591.1 19079859 4 34926461 34927024 Lagopus leucura 30410 CAG|GTCAGTCTAA...ATACTTTTAAAT/TTTAAATTCACA...CCTAG|GAA 0 1 3.451
101755168 GT-AG 0 1.000000099473604e-05 741 rna-XM_042869591.1 19079859 5 34925578 34926318 Lagopus leucura 30410 AAG|GTACAGTCTG...TCCATCTGATTC/ATCCATCTGATT...TGCAG|GTG 1 1 5.601
101755169 GT-AG 0 1.000000099473604e-05 2080 rna-XM_042869591.1 19079859 6 34923321 34925400 Lagopus leucura 30410 TAA|GTCAGGTCAT...GCGCTGTCGACG/GCAGAGGTCAAG...CGAAG|GCT 1 1 8.28

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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]);