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)

5 rows where transcript_id = 19905848

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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
106496721 GT-AG 0 0.0125007509728712 922 rna-XM_031505874.1 19905848 1 100590580 100591501 Lonchura striata 40157 AAG|GTATGTTTGC...CCTTCTTTACCC/CCCTTCTTTACC...TCCAG|ACT 1 1 8.859
106496722 GT-AG 0 1.1227809343905684e-05 464 rna-XM_031505874.1 19905848 2 100591692 100592155 Lonchura striata 40157 CAA|GTAAGTAGGT...TGATTCTTAGCT/TTGATTCTTAGC...TGCAG|GGC 2 1 13.301
106496723 GT-AG 0 1.000000099473604e-05 424 rna-XM_031505874.1 19905848 3 100592256 100592679 Lonchura striata 40157 TTG|GTAGGGAATA...GTGGCTTTCTCT/AAGTGACTGAGT...TGCAG|AAT 0 1 15.638
106496724 GT-AG 0 1.000000099473604e-05 1660 rna-XM_031505874.1 19905848 4 100594910 100596569 Lonchura striata 40157 CGG|GTGAGTGCTG...TTTTTCTTTTTT/AAAAAATTAAAT...CTAAG|GCG 1 1 67.765
106496725 GT-AG 0 1.000000099473604e-05 1059 rna-XM_031505874.1 19905848 5 100596831 100597889 Lonchura striata 40157 CAG|GTAAGCAAAT...AATTCCTTGTTT/TTGATTGTTACT...CCTAG|GAA 1 1 73.866

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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]);