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 = 32210555

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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
179854136 GT-AG 0 1.000000099473604e-05 17010 rna-XM_047253897.1 32210555 1 1220782135 1220799144 Schistocerca piceifrons 274613 TAG|GTAAGTGGCC...CCTACTTAACAT/GCTAGTTGCATA...CTCAG|TTC 1 1 24.826
179854137 GT-AG 0 2.3238355710910105e-05 8740 rna-XM_047253897.1 32210555 2 1220799314 1220808053 Schistocerca piceifrons 274613 CAG|GTATAACTCG...AACTACATAACA/AACTACATAACA...TGTAG|CTC 2 1 28.178
179854138 GT-AG 0 1.000000099473604e-05 4907 rna-XM_047253897.1 32210555 3 1220808580 1220813486 Schistocerca piceifrons 274613 CAG|GTGGGAATGA...TACTTTTTGGTT/GTGAAATTTACT...TGCAG|GAC 0 1 38.608
179854139 GT-AG 0 3.067183407657864e-05 57765 rna-XM_047253897.1 32210555 4 1220813648 1220871412 Schistocerca piceifrons 274613 ACT|GTAAGTATAC...TGTTCTTTTGTT/TTATTTGTTATA...GACAG|GTA 2 1 41.801
179854140 GT-AG 0 1.000000099473604e-05 5150 rna-XM_047253897.1 32210555 5 1220871928 1220877077 Schistocerca piceifrons 274613 ATG|GTTAGAAAAA...TCTTTTTTAACA/TCTTTTTTAACA...TTCAG|GTT 1 1 52.013
179854141 GT-AG 0 1.000000099473604e-05 62958 rna-XM_047253897.1 32210555 6 1220878618 1220941575 Schistocerca piceifrons 274613 TGG|GTGTGTACAC...GGTATTTTGATG/GGTATTTTGATG...TTCAG|ATC 2 1 82.55

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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]);