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 = 26649259

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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
147771781 GT-AG 0 0.0492505044427615 84 PHUM604070-RA 26649259 1 1261248 1261331 Pediculus humanus 121224 TTG|GTAACTTTTG...TTTTTTTTGTCT/TTCTTCCTCAAA...TCAAG|GGT 0 1 3.752
147771782 GT-AG 0 1.000000099473604e-05 70 PHUM604070-RA 26649259 2 1261018 1261087 Pediculus humanus 121224 ACG|GTGAGTTTAT...ATCGTTTTAACT/ATCGTTTTAACT...CCCAG|GTA 1 1 13.759
147771783 GT-AG 0 2.3253978521224724e-05 74 PHUM604070-RA 26649259 3 1260717 1260790 Pediculus humanus 121224 GAA|GTAATTGCTT...ACGTTTTTAAAA/ACGTTTTTAAAA...TTCAG|AGA 0 1 27.955
147771784 GT-AG 0 1.000000099473604e-05 90 PHUM604070-RA 26649259 4 1260377 1260466 Pediculus humanus 121224 CCG|GTAAGGAAAA...TCATCGTTAATC/CCTTCTTTCATC...TCCAG|CTA 1 1 43.59
147771785 GT-AG 0 1.000000099473604e-05 73 PHUM604070-RA 26649259 5 1259845 1259917 Pediculus humanus 121224 AAG|GTGAGATCGT...TTATTTTTAAAC/AAAGGTTTCATT...TTTAG|GTA 1 1 72.295
147771786 GT-AG 0 1.000000099473604e-05 79 PHUM604070-RA 26649259 6 1259468 1259546 Pediculus humanus 121224 AAG|GTAAAAAAAT...CGTATTTTAAAT/CGTATTTTAAAT...TTCAG|TTT 2 1 90.932

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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]);