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 = 31282395

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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
174343231 GT-AG 0 1.000000099473604e-05 53 rna-JXQ802_LOCUS62 31282395 1 323147 323199 Rotaria sordida 392033 TGG|GTAAATAATT...GTGTTTTTATAT/GGTGTTTTTATA...TTTAG|TTG 2 1 9.444
174343232 GT-AG 0 1.000000099473604e-05 60 rna-JXQ802_LOCUS62 31282395 2 323011 323070 Rotaria sordida 392033 TGG|GTTAAGTATA...AATACTTTGATT/AATACTTTGATT...TATAG|TCA 0 1 20.0
174343233 GT-AG 0 1.0872892946909972e-05 58 rna-JXQ802_LOCUS62 31282395 3 322821 322878 Rotaria sordida 392033 CGA|GTAAGATCTA...TAATTTTTATTA/TTAATTTTTATT...AATAG|GAT 0 1 38.333
174343234 GT-AG 0 1.000000099473604e-05 50 rna-JXQ802_LOCUS62 31282395 4 322644 322693 Rotaria sordida 392033 ATG|GTAAATAATT...TATACTTTTTCT/TTGTAGATTATA...CTTAG|ATA 1 1 55.972
174343235 GT-AG 0 1.1775048845822682e-05 53 rna-JXQ802_LOCUS62 31282395 5 322530 322582 Rotaria sordida 392033 TAG|GTAAAATTTT...TGACTTTTATAT/TTGACTTTTATA...TTTAG|ATA 2 1 64.444
174343236 GT-AG 0 2.8774411828412626e-05 53 rna-JXQ802_LOCUS62 31282395 6 322430 322482 Rotaria sordida 392033 CTG|GTAGGTTTTT...TATGATTTATAC/ATATGATTTATA...ATTAG|CAT 1 1 70.972
174343237 GT-AG 0 0.0076765165582045 54 rna-JXQ802_LOCUS62 31282395 7 322306 322359 Rotaria sordida 392033 GAA|GTAAACTTTT...CTTTTGTTATCT/TGTTATCTAATC...TTTAG|TGT 2 1 80.694

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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]);