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 = 34322215

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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
192366038 GT-AG 0 1.000000099473604e-05 158 rna-XM_022953964.1 34322215 3 2280618 2280775 Stylophora pistillata 50429 GAG|GTCAGTTTAA...GTTGTTATAGTT/CGCATTCTGACT...TACAG|CTT 1 1 26.95
192366039 GT-AG 0 1.000000099473604e-05 759 rna-XM_022953964.1 34322215 4 2281259 2282017 Stylophora pistillata 50429 CAG|GTGTGAAACT...CAAGTCTTATCT/TTATTTGTTACT...ACCAG|GTT 1 1 40.259
192366040 GT-AG 0 4.191912268139578e-05 330 rna-XM_022953964.1 34322215 5 2282102 2282431 Stylophora pistillata 50429 CAG|GTATTAAATT...AATTTCCTATTT/TAATTTCCTATT...TTCAG|ACT 1 1 42.574
192366041 GT-AG 0 1.000000099473604e-05 262 rna-XM_022953964.1 34322215 6 2284109 2284370 Stylophora pistillata 50429 CAG|GTGGGTTAGG...TTTTTTTTTCCT/AAGAGTTTGAAT...TGTAG|TGG 1 1 88.785
192366042 GT-AG 0 1.000000099473604e-05 687 rna-XM_022953964.1 34322215 7 2284732 2285418 Stylophora pistillata 50429 AAG|GTTAGTTAAC...TATCTCTTATCT/CTATCTCTTATC...AACAG|AAC 2 1 98.732
192367550 GT-AG 0 0.0024097686004603 713 rna-XM_022953964.1 34322215 1 2274523 2275235 Stylophora pistillata 50429 AAG|GTACGCTTAA...TGACTTTTAAAT/TGATTTCTGACT...GACAG|TCT   0 2.149
192367551 GT-AG 0 1.000000099473604e-05 4388 rna-XM_022953964.1 34322215 2 2275358 2279745 Stylophora pistillata 50429 AAG|GTAGGTAACT...GATCTTTTAAAA/GATCTTTTAAAA...GGCAG|GAA   0 5.511

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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]);