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 = 670670

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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
3636526 GT-AG 0 1.000000099473604e-05 52 rna-BJG266_LOCUS115 670670 1 357615 357666 Adineta steineri 433720 CAA|GTAATATCAC...AATACTTTAAAA/AGATTTTTTATA...TATAG|AAC 1 1 13.697
3636527 GT-AG 0 1.6715699443215516e-05 55 rna-BJG266_LOCUS115 670670 2 357398 357452 Adineta steineri 433720 TTT|GTAAGTAATA...CTACATTTAATT/AATCTATTCATC...TCCAG|ATG 1 1 17.844
3636528 GT-AG 0 1.000000099473604e-05 48 rna-BJG266_LOCUS115 670670 3 356154 356201 Adineta steineri 433720 AAA|GTAAAGAAAA...TGTTTATTAACC/TTTATGTTTATT...TATAG|ATT 0 1 48.464
3636529 GT-AG 0 0.0454850101597113 631 rna-BJG266_LOCUS115 670670 4 355490 356120 Adineta steineri 433720 CAG|GTATATTTTA...GTTATTTTATTT/AGTTATTTTATT...TCTAG|TTA 0 1 49.309
3636530 GT-AG 0 1.000000099473604e-05 49 rna-BJG266_LOCUS115 670670 5 354892 354940 Adineta steineri 433720 CAA|GTAAAACCAA...ATAATTTTATTT/AAATAATTCACT...TTAAG|GCA 0 1 63.364
3636531 GT-AG 0 1.000000099473604e-05 61 rna-BJG266_LOCUS115 670670 6 353757 353817 Adineta steineri 433720 AAG|GTAAAAGTGA...TCTTCTTTAATA/ATAATGTTGACT...ATTAG|ATT 0 1 90.86

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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]);