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 = 670726

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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
3637143 GT-AG 0 0.3560243346107308 220 rna-BJG266_LOCUS284 670726 1 916229 916448 Adineta steineri 433720 TCA|GTATGTTTTA...TATTCTTTTGTT/CTGATGATGATA...TATAG|TGT 0 1 16.832
3637144 GT-AG 0 0.01490885009437 52 rna-BJG266_LOCUS284 670726 2 915976 916027 Adineta steineri 433720 ACC|GTATGTAATT...TATATGTTAACT/TATATGTTAACT...TTTAG|ACT 0 1 25.124
3637145 GT-AG 0 0.0001211777263877 55 rna-BJG266_LOCUS284 670726 3 915380 915434 Adineta steineri 433720 CAG|GTATGAATTT...ATATTTTTATTC/AATATTTTTATT...TCTAG|CTT 1 1 47.442
3637146 GT-AG 0 1.000000099473604e-05 54 rna-BJG266_LOCUS284 670726 4 915195 915248 Adineta steineri 433720 TTA|GTAAAAAAAA...TTTTTCTTCATA/TTTTTCTTCATA...ATTAG|GGT 0 1 52.847
3637147 GT-AG 0 0.0008469799715159 52 rna-BJG266_LOCUS284 670726 5 914746 914797 Adineta steineri 433720 TTT|GTAAGTTATT...TTTTTTTTATTT/GTTTTTTTTATT...TCCAG|CAT 1 1 69.224
3637148 GT-AG 0 1.000000099473604e-05 65 rna-BJG266_LOCUS284 670726 6 914385 914449 Adineta steineri 433720 ATG|GTAAAAAATT...TTTGTTTTGAAC/TTTGTTTTGAAC...TTTAG|ACA 0 1 81.436
3637149 GT-AG 0 1.000000099473604e-05 45 rna-BJG266_LOCUS284 670726 7 914205 914249 Adineta steineri 433720 ACA|GTAAATAAAT...TAATAATTAATC/TAATAATTAATC...TTTAG|ATT 0 1 87.005

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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]);