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 = 10007571

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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
55033559 GT-AG 0 1.000000099473604e-05 77 rna-XM_008445911.2 10007571 1 86062 86138 Cucumis melo 3656 AAG|GTGAAAAAAA...TCATCTTTATTT/TCTTTATTTACT...TTTAG|GAA 0 1 38.339
55033560 GT-AG 0 0.043012834589759 4793 rna-XM_008445911.2 10007571 2 86277 91069 Cucumis melo 3656 AAG|GTATCAACTA...TTGCTCTTACCG/TTTGCTCTTACC...CTCAG|TTG 0 1 43.572
55033561 GT-AG 0 1.000000099473604e-05 83 rna-XM_008445911.2 10007571 3 91175 91257 Cucumis melo 3656 AAG|GTTCTATCAT...TATCTTATGACT/ATCATGCTGATT...GGCAG|GCA 0 1 47.554
55033562 GT-AG 0 1.000000099473604e-05 461 rna-XM_008445911.2 10007571 4 91444 91904 Cucumis melo 3656 CAG|GTGCGTGCCA...ATCCTTTTAATG/CCCGTTTTTATG...AACAG|GCT 0 1 54.608
55033563 GT-AG 0 1.000000099473604e-05 4672 rna-XM_008445911.2 10007571 5 92095 96766 Cucumis melo 3656 CAG|GTCTGGGATT...TTTGTGTTGACT/TTTGTGTTGACT...TGCAG|CTG 1 1 61.813
55033564 GT-AG 0 0.0073760871890773 516 rna-XM_008445911.2 10007571 6 97012 97527 Cucumis melo 3656 CGG|GTATGCATCT...AGCTCGTTATCT/ATAATTATAATT...TGCAG|GTG 0 1 71.104
55033565 GT-AG 0 1.000000099473604e-05 93 rna-XM_008445911.2 10007571 7 97698 97790 Cucumis melo 3656 GAA|GTAAAAAGAT...TTTTCTTTTTCT/CTTTTTCTCACA...CGCAG|ATA 2 1 77.55

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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]);