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 = 670676

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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
3636589 GT-AG 0 2.139878077451937e-05 62 rna-BJG266_LOCUS7 670676 1 25523 25584 Adineta steineri 433720 TTG|GTAAGTTTAA...TTGTTCATATTA/AATTTGTTCATA...AATAG|AAT 1 1 3.781
3636590 GT-AG 0 1.000000099473604e-05 351 rna-BJG266_LOCUS7 670676 2 24593 24943 Adineta steineri 433720 ACG|GTAAGATATA...TTATTCTTAAAA/TTTATTCTTAAA...TATAG|ATT 1 1 19.878
3636591 GT-AG 0 0.0001088820280851 133 rna-BJG266_LOCUS7 670676 3 22962 23094 Adineta steineri 433720 AAA|GTAAATCTTT...TGTTCTTTCATT/TGTTCTTTCATT...TCTAG|TCA 2 1 61.523
3636592 GT-AG 0 1.000000099473604e-05 122 rna-BJG266_LOCUS7 670676 4 22245 22366 Adineta steineri 433720 CAG|GTGAGATTGT...TTTTTTTTATTT/TTTTTTTTTATT...TTTAG|TCG 0 1 78.065
3636593 GT-AG 0 0.000985020417816 189 rna-BJG266_LOCUS7 670676 5 21974 22162 Adineta steineri 433720 CAG|GTATTTCTAA...GTATTCTGATTT/TGTATTCTGATT...ACTAG|ATT 1 1 80.345
3636594 GT-AG 0 7.655867464765317e-05 54 rna-BJG266_LOCUS7 670676 6 21598 21651 Adineta steineri 433720 AAA|GTAATTATTA...TTGTTTTTTTCT/AAAAAAATTAGA...TGTAG|AAC 2 1 89.297
3636595 GT-AG 0 5.833883506852975e-05 63 rna-BJG266_LOCUS7 670676 7 21456 21518 Adineta steineri 433720 CCT|GTAAGTGATT...TTTTTTTTATTT/ATTTTTTTTATT...ATTAG|AAT 0 1 91.493

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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]);