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 = 3504105

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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
17295311 GT-AG 0 1.000000099473604e-05 17252 rna-XM_037143332.1 3504105 1 153395 170646 Artibeus jamaicensis 9417 TGG|GTAAGGAGGC...TAAACCTTATTA/TTGTGATTTACT...TTTAG|GGA 0 1 7.2
17295312 GT-AG 0 1.865163925913052e-05 1772 rna-XM_037143332.1 3504105 2 151557 153328 Artibeus jamaicensis 9417 GTG|GTAAGTTACT...GGAATTTTAATC/ATTTTAATCATT...ATTAG|CAC 0 1 16.0
17295313 GT-AG 0 2.0237299657031745e-05 86 rna-XM_037143332.1 3504105 3 151408 151493 Artibeus jamaicensis 9417 AAG|GTATGATGAA...GGTGCTTTTTCT/AAAATATTTAGT...TACAG|AGA 0 1 24.4
17295314 GT-AG 0 1.8380485403711783e-05 6207 rna-XM_037143332.1 3504105 4 145084 151290 Artibeus jamaicensis 9417 AAG|GTACTGATTT...GTTATTTTAAAA/GTTATTTTAAAA...TTTAG|GTT 0 1 40.0
17295315 GT-AG 0 1.9474757602247037e-05 1241 rna-XM_037143332.1 3504105 5 143674 144914 Artibeus jamaicensis 9417 TTG|GTATGAGACT...TGGTCCTTACAC/CTGGTCCTTACA...TTCAG|GAA 1 1 62.533
17295316 GT-AG 0 1.000000099473604e-05 6392 rna-XM_037143332.1 3504105 6 137172 143563 Artibeus jamaicensis 9417 TAT|GTGAGTATTT...TAATTCTAATAT/ATAATTCTAATA...TGTAG|GAG 0 1 77.2
17295317 GT-AG 0 0.0635028452016165 13304 rna-XM_037143332.1 3504105 7 123791 137094 Artibeus jamaicensis 9417 AAG|GTATGCTTTT...TAATCATTAATA/ATGGTAATCATT...TATAG|GAG 2 1 87.467

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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]);